Generate fusion proteins.ipynb

{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 3,
   "id": "b2dd1348",
   "metadata": {},
   "outputs": [],
   "source": [
    "# dictionary mapping gene names to list of last included exons\n",
    "five_prime_genes = {\n",
    "    # MGA exon 22, NUTM1 exon 3, source: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6318763/\n",
    "    \"MGA\": [22], \n",
    "    \n",
    "    # BRD4 exons 10 & 11, sources:\n",
    "    # - https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5378225/\n",
    "    # - https://aacrjournals.org/cancerres/article/63/2/304/510577/BRD4-NUT-Fusion-OncogeneA-Novel-Mechanism-in\n",
    "    #\n",
    "    # - exon 15, source: https://www.nature.com/articles/onc2012487\n",
    "    \"BRD4\": [10, 11, 12, 13, 14, 15],\n",
    "    \n",
    "    # BRD3 exon 9, NUTM1 exon 2, source: https://www.nature.com/articles/1210852\n",
    "    \"BRD3\": [9],\n",
    "    \n",
    "    \n",
    "    # MXD4 exon 5, NUTM1 exons 2 & 3, sources:\n",
    "    # - https://pubmed.ncbi.nlm.nih.gov/30338611/\n",
    "    # - https://www.nature.com/articles/s41379-021-00792-z\n",
    "    \"MXD4\": [5],\n",
    "    \n",
    "    # CIC exons 16-20, NUTM1 exons 2-5, source: https://hal.archives-ouvertes.fr/hal-01927040\n",
    "    \"CIC\": [16, 17, 18, 19, 20],\n",
    "    \n",
    "    # SLC12A6 exon 2, NUTM1 exon 3, source: https://www.haematologica.org/article/view/9099\n",
    "    \"SLC12A6\": [2],\n",
    "    \n",
    "    # YAP1 exon 3, NUTM1 exon 2, source: https://link.springer.com/article/10.1007/s12105-020-01173-9\n",
    "    \"YAP1\": [3],\n",
    "    \n",
    "    # NSD3 exon 7, NUTM1 exon 2, sources:\n",
    "    # * https://www.frontiersin.org/articles/10.3389/fonc.2022.860830/full\n",
    "    # * https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4125436/\n",
    "    \"NSD3\": [7],\n",
    "}\n",
    "\n",
    "# * even though the CIC paper claims there are fusions on exons 4 & 5, I don't see those in any other papers\n",
    "# * OK, found one reference with BRD4 exon 11 fused onto NUTM1 exon 3, both of which have end/start phases of 1\n",
    "#   source: \n",
    "# * Oy, found that older references missed what is now considered exon 1, so adding exon 6 which was the old exon 5\n",
    "NUTM1_start_exons = [2, 3, 4, 5, 6] "
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "e8dcb8d6",
   "metadata": {},
   "outputs": [],
   "source": [
    "from pyensembl import ensembl_grch38"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "id": "1e0d38f2",
   "metadata": {},
   "outputs": [],
   "source": [
    "name_to_gene = {}\n",
    "for name in set(five_prime_genes.keys()).union({\"NUTM1\"}):\n",
    "    genes = ensembl_grch38.genes_by_name(name)\n",
    "    assert len(genes) == 1\n",
    "    name_to_gene[name] = genes[0]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "id": "e84bf0cb",
   "metadata": {},
   "outputs": [],
   "source": [
    "def transcript_key(t):\n",
    "    return (t.complete, -t.support_level if t.support_level else 100, len(t.protein_sequence) if t.protein_sequence else 0)\n",
    "\n",
    "def pick_best_transcript(ts):\n",
    "    return sorted(ts, key=transcript_key)[-1]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "id": "3a35b493",
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "INFO:pyensembl.sequence_data:Loaded sequence dictionary from /Users/iskander/Library/Caches/pyensembl/GRCh38/ensembl109/Homo_sapiens.GRCh38.cdna.all.fa.gz.pickle\n",
      "INFO:pyensembl.sequence_data:Loaded sequence dictionary from /Users/iskander/Library/Caches/pyensembl/GRCh38/ensembl109/Homo_sapiens.GRCh38.ncrna.fa.gz.pickle\n",
      "INFO:pyensembl.sequence_data:Loaded sequence dictionary from /Users/iskander/Library/Caches/pyensembl/GRCh38/ensembl109/Homo_sapiens.GRCh38.pep.all.fa.gz.pickle\n"
     ]
    }
   ],
   "source": [
    "canonical_transcripts = {\"NUTM1\": \"NUTM1-203\"}\n",
    "\n",
    "name_to_transcript = {}\n",
    "\n",
    "for (name, gene) in name_to_gene.items():\n",
    "    if name in canonical_transcripts:\n",
    "        transcript_name = canonical_transcripts[name]\n",
    "        transcript = ensembl_grch38.transcripts_by_name(transcript_name)[0]\n",
    "    else:\n",
    "        transcript = pick_best_transcript(gene.transcripts)\n",
    "    name_to_transcript[name] = transcript"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 18,
   "id": "607f0672",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "MXD4 Gene(gene_id='ENSG00000123933', gene_name='MXD4', biotype='protein_coding', contig='4', start=2247432, end=2262109, strand='-', genome='GRCh38') [Transcript(transcript_id='ENST00000337190', transcript_name='MXD4-201', gene_id='ENSG00000123933', biotype='protein_coding', contig='4', start=2247432, end=2262109, strand='-', genome='GRCh38')]\n",
      "SLC12A6 Gene(gene_id='ENSG00000140199', gene_name='SLC12A6', biotype='protein_coding', contig='15', start=34229784, end=34338060, strand='-', genome='GRCh38') [Transcript(transcript_id='ENST00000354181', transcript_name='SLC12A6-202', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34229784, end=34337781, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000290209', transcript_name='SLC12A6-201', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34229996, end=34318779, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000676379', transcript_name='SLC12A6-221', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34230036, end=34337462, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000397707', transcript_name='SLC12A6-204', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34233259, end=34336844, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000560611', transcript_name='SLC12A6-217', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34233259, end=34336844, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000458406', transcript_name='SLC12A6-205', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34233259, end=34337760, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000397702', transcript_name='SLC12A6-203', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34233259, end=34338060, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000560164', transcript_name='SLC12A6-216', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34233262, end=34299658, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000558667', transcript_name='SLC12A6-207', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34233712, end=34338057, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000558589', transcript_name='SLC12A6-206', gene_id='ENSG00000140199', biotype='protein_coding', contig='15', start=34233881, end=34337757, strand='-', genome='GRCh38')]\n",
      "NSD3 Gene(gene_id='ENSG00000147548', gene_name='NSD3', biotype='protein_coding', contig='8', start=38269704, end=38382272, strand='-', genome='GRCh38') [Transcript(transcript_id='ENST00000317025', transcript_name='NSD3-202', gene_id='ENSG00000147548', biotype='protein_coding', contig='8', start=38269704, end=38382271, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000433384', transcript_name='NSD3-203', gene_id='ENSG00000147548', biotype='protein_coding', contig='8', start=38275023, end=38382245, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000527502', transcript_name='NSD3-206', gene_id='ENSG00000147548', biotype='protein_coding', contig='8', start=38275543, end=38381846, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000316985', transcript_name='NSD3-201', gene_id='ENSG00000147548', biotype='protein_coding', contig='8', start=38316417, end=38382272, strand='-', genome='GRCh38')]\n",
      "MGA Gene(gene_id='ENSG00000174197', gene_name='MGA', biotype='protein_coding', contig='15', start=41621134, end=41773081, strand='+', genome='GRCh38') [Transcript(transcript_id='ENST00000566586', transcript_name='MGA-207', gene_id='ENSG00000174197', biotype='protein_coding', contig='15', start=41660397, end=41773081, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000219905', transcript_name='MGA-201', gene_id='ENSG00000174197', biotype='protein_coding', contig='15', start=41660405, end=41769940, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000703841', transcript_name='MGA-214', gene_id='ENSG00000174197', biotype='protein_coding', contig='15', start=41660405, end=41769940, strand='+', genome='GRCh38')]\n",
      "BRD4 Gene(gene_id='ENSG00000141867', gene_name='BRD4', biotype='protein_coding', contig='19', start=15235519, end=15332545, strand='-', genome='GRCh38') [Transcript(transcript_id='ENST00000263377', transcript_name='BRD4-201', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15235519, end=15280451, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000679869', transcript_name='BRD4-213', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15235519, end=15332539, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000371835', transcript_name='BRD4-203', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15247047, end=15280451, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000360016', transcript_name='BRD4-202', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15252992, end=15332545, strand='-', genome='GRCh38')]\n",
      "BRD3 Gene(gene_id='ENSG00000169925', gene_name='BRD3', biotype='protein_coding', contig='9', start=134030305, end=134068535, strand='-', genome='GRCh38') [Transcript(transcript_id='ENST00000303407', transcript_name='BRD3-201', gene_id='ENSG00000169925', biotype='protein_coding', contig='9', start=134030305, end=134068026, strand='-', genome='GRCh38'), Transcript(transcript_id='ENST00000371834', transcript_name='BRD3-202', gene_id='ENSG00000169925', biotype='protein_coding', contig='9', start=134036028, end=134068535, strand='-', genome='GRCh38')]\n",
      "NUTM1 Gene(gene_id='ENSG00000184507', gene_name='NUTM1', biotype='protein_coding', contig='15', start=34343315, end=34357737, strand='+', genome='GRCh38') [Transcript(transcript_id='ENST00000537011', transcript_name='NUTM1-203', gene_id='ENSG00000184507', biotype='protein_coding', contig='15', start=34343315, end=34357735, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000614490', transcript_name='NUTM1-204', gene_id='ENSG00000184507', biotype='protein_coding', contig='15', start=34343315, end=34357737, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000438749', transcript_name='NUTM1-202', gene_id='ENSG00000184507', biotype='protein_coding', contig='15', start=34343410, end=34357737, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000333756', transcript_name='NUTM1-201', gene_id='ENSG00000184507', biotype='protein_coding', contig='15', start=34345865, end=34357732, strand='+', genome='GRCh38')]\n",
      "YAP1 Gene(gene_id='ENSG00000137693', gene_name='YAP1', biotype='protein_coding', contig='11', start=102110447, end=102233424, strand='+', genome='GRCh38') [Transcript(transcript_id='ENST00000282441', transcript_name='YAP1-201', gene_id='ENSG00000137693', biotype='protein_coding', contig='11', start=102110447, end=102233424, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000526343', transcript_name='YAP1-204', gene_id='ENSG00000137693', biotype='protein_coding', contig='11', start=102110461, end=102230592, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000537274', transcript_name='YAP1-209', gene_id='ENSG00000137693', biotype='protein_coding', contig='11', start=102110461, end=102233423, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000345877', transcript_name='YAP1-202', gene_id='ENSG00000137693', biotype='protein_coding', contig='11', start=102110461, end=102233423, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000615667', transcript_name='YAP1-210', gene_id='ENSG00000137693', biotype='protein_coding', contig='11', start=102110461, end=102233423, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000629586', transcript_name='YAP1-211', gene_id='ENSG00000137693', biotype='protein_coding', contig='11', start=102110849, end=102229940, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000531439', transcript_name='YAP1-208', gene_id='ENSG00000137693', biotype='protein_coding', contig='11', start=102110849, end=102229963, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000524575', transcript_name='YAP1-203', gene_id='ENSG00000137693', biotype='protein_coding', contig='11', start=102112514, end=102230152, strand='+', genome='GRCh38')]\n",
      "CIC Gene(gene_id='ENSG00000079432', gene_name='CIC', biotype='protein_coding', contig='19', start=42268537, end=42295797, strand='+', genome='GRCh38') [Transcript(transcript_id='ENST00000572681', transcript_name='CIC-203', gene_id='ENSG00000079432', biotype='protein_coding', contig='19', start=42268537, end=42295796, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000681038', transcript_name='CIC-209', gene_id='ENSG00000079432', biotype='protein_coding', contig='19', start=42269252, end=42295796, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000160740', transcript_name='CIC-201', gene_id='ENSG00000079432', biotype='protein_coding', contig='19', start=42284020, end=42295796, strand='+', genome='GRCh38'), Transcript(transcript_id='ENST00000575354', transcript_name='CIC-206', gene_id='ENSG00000079432', biotype='protein_coding', contig='19', start=42284665, end=42295797, strand='+', genome='GRCh38')]\n"
     ]
    }
   ],
   "source": [
    "\n",
    "name_to_transcripts = {}\n",
    "\n",
    "for (name, gene) in name_to_gene.items():\n",
    "    ts = sorted([t for t in gene.transcripts if t.biotype == \"protein_coding\" and t.complete])\n",
    "    print(name, gene, ts)\n",
    "    name_to_transcripts[name] = ts\n",
    "    "
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 20,
   "id": "97b56ed5",
   "metadata": {},
   "outputs": [],
   "source": [
    "name_to_coding_exon_lengths = {}\n",
    "for name, transcripts in name_to_transcripts.items():\n",
    "    for t in transcripts:\n",
    "        exon_coords = t.coding_sequence_position_ranges\n",
    "        if t.strand == \"-\":\n",
    "            exons = reversed([(end, start) for (start, end) in exon_coords])\n",
    "        name_to_coding_exon_lengths[t.name] = [end - start + 1 for (start, end) in exon_coords]\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 21,
   "id": "6acd370f",
   "metadata": {},
   "outputs": [
    {
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       "  127,\n",
       "  101,\n",
       "  46,\n",
       "  131,\n",
       "  129,\n",
       "  127,\n",
       "  198,\n",
       "  171,\n",
       "  147,\n",
       "  157,\n",
       "  203,\n",
       "  113,\n",
       "  270,\n",
       "  117,\n",
       "  142,\n",
       "  107,\n",
       "  205,\n",
       "  239],\n",
       " 'NSD3-203': [675,\n",
       "  72,\n",
       "  163,\n",
       "  155,\n",
       "  516,\n",
       "  127,\n",
       "  101,\n",
       "  46,\n",
       "  131,\n",
       "  129,\n",
       "  127,\n",
       "  198,\n",
       "  171,\n",
       "  157,\n",
       "  203,\n",
       "  113,\n",
       "  270,\n",
       "  117,\n",
       "  142,\n",
       "  107,\n",
       "  205,\n",
       "  239],\n",
       " 'NSD3-206': [675,\n",
       "  72,\n",
       "  163,\n",
       "  155,\n",
       "  516,\n",
       "  127,\n",
       "  101,\n",
       "  46,\n",
       "  131,\n",
       "  129,\n",
       "  127,\n",
       "  198,\n",
       "  171,\n",
       "  147,\n",
       "  157,\n",
       "  203,\n",
       "  113,\n",
       "  270,\n",
       "  84,\n",
       "  142,\n",
       "  107,\n",
       "  205,\n",
       "  239],\n",
       " 'NSD3-201': [675, 72, 163, 155, 516, 127, 101, 46, 80],\n",
       " 'MGA-207': [1064,\n",
       "  949,\n",
       "  79,\n",
       "  96,\n",
       "  132,\n",
       "  105,\n",
       "  659,\n",
       "  346,\n",
       "  227,\n",
       "  186,\n",
       "  73,\n",
       "  518,\n",
       "  151,\n",
       "  291,\n",
       "  1505,\n",
       "  131,\n",
       "  52,\n",
       "  207,\n",
       "  112,\n",
       "  234,\n",
       "  177,\n",
       "  1274],\n",
       " 'MGA-201': [1064,\n",
       "  949,\n",
       "  79,\n",
       "  96,\n",
       "  132,\n",
       "  105,\n",
       "  659,\n",
       "  346,\n",
       "  227,\n",
       "  186,\n",
       "  73,\n",
       "  518,\n",
       "  151,\n",
       "  627,\n",
       "  291,\n",
       "  1505,\n",
       "  131,\n",
       "  52,\n",
       "  207,\n",
       "  112,\n",
       "  234,\n",
       "  177,\n",
       "  1274],\n",
       " 'MGA-214': [1064,\n",
       "  949,\n",
       "  79,\n",
       "  96,\n",
       "  132,\n",
       "  105,\n",
       "  659,\n",
       "  346,\n",
       "  227,\n",
       "  186,\n",
       "  73,\n",
       "  518,\n",
       "  298,\n",
       "  627,\n",
       "  291,\n",
       "  1505,\n",
       "  131,\n",
       "  52,\n",
       "  207,\n",
       "  112,\n",
       "  234,\n",
       "  177,\n",
       "  1274],\n",
       " 'BRD4-201': [285,\n",
       "  138,\n",
       "  136,\n",
       "  290,\n",
       "  363,\n",
       "  129,\n",
       "  210,\n",
       "  200,\n",
       "  296,\n",
       "  111,\n",
       "  53,\n",
       "  370,\n",
       "  588,\n",
       "  113,\n",
       "  163,\n",
       "  131,\n",
       "  206,\n",
       "  238,\n",
       "  66],\n",
       " 'BRD4-213': [285,\n",
       "  138,\n",
       "  136,\n",
       "  290,\n",
       "  363,\n",
       "  129,\n",
       "  210,\n",
       "  200,\n",
       "  296,\n",
       "  111,\n",
       "  53,\n",
       "  370,\n",
       "  588,\n",
       "  113,\n",
       "  163,\n",
       "  131,\n",
       "  206,\n",
       "  238,\n",
       "  66],\n",
       " 'BRD4-203': [285, 138, 136, 290, 363, 129, 210, 200, 296, 111, 8],\n",
       " 'BRD4-202': [285, 138, 136, 290, 363, 129, 210, 200, 296, 111, 224],\n",
       " 'BRD3-201': [213, 138, 148, 215, 372, 129, 192, 236, 293, 129, 113],\n",
       " 'BRD3-202': [213, 138, 148, 215, 372, 129, 192, 236, 25],\n",
       " 'NUTM1-203': [6, 94, 709, 129, 137, 287, 117, 2001],\n",
       " 'NUTM1-204': [16, 709, 129, 137, 287, 117, 2001],\n",
       " 'NUTM1-202': [70, 709, 129, 137, 287, 117, 2001],\n",
       " 'NUTM1-201': [16, 709, 129, 137, 287, 117, 2001],\n",
       " 'YAP1-201': [321, 251, 116, 114, 182, 48, 131, 113, 236],\n",
       " 'YAP1-204': [321, 251, 116, 182, 131, 113, 236],\n",
       " 'YAP1-209': [321, 251, 116, 114, 194, 131, 113, 236],\n",
       " 'YAP1-202': [321, 251, 116, 194, 48, 131, 113, 236],\n",
       " 'YAP1-210': [321, 251, 116, 114, 194, 48, 131, 113, 236],\n",
       " 'YAP1-211': [321, 251, 116, 194, 131, 113, 236],\n",
       " 'YAP1-208': [321, 251, 116, 114, 182, 131, 113, 236],\n",
       " 'YAP1-203': [38, 116, 114, 182, 48, 131, 113, 236],\n",
       " 'CIC-203': [2794,\n",
       "  150,\n",
       "  235,\n",
       "  130,\n",
       "  183,\n",
       "  166,\n",
       "  203,\n",
       "  226,\n",
       "  104,\n",
       "  1234,\n",
       "  188,\n",
       "  122,\n",
       "  167,\n",
       "  291,\n",
       "  323,\n",
       "  245,\n",
       "  152,\n",
       "  132,\n",
       "  132,\n",
       "  365],\n",
       " 'CIC-209': [2794,\n",
       "  150,\n",
       "  235,\n",
       "  130,\n",
       "  183,\n",
       "  166,\n",
       "  203,\n",
       "  226,\n",
       "  104,\n",
       "  1234,\n",
       "  188,\n",
       "  122,\n",
       "  167,\n",
       "  294,\n",
       "  326,\n",
       "  245,\n",
       "  155,\n",
       "  132,\n",
       "  132,\n",
       "  365],\n",
       " 'CIC-201': [67,\n",
       "  150,\n",
       "  235,\n",
       "  130,\n",
       "  183,\n",
       "  166,\n",
       "  203,\n",
       "  226,\n",
       "  104,\n",
       "  1234,\n",
       "  188,\n",
       "  122,\n",
       "  167,\n",
       "  291,\n",
       "  323,\n",
       "  245,\n",
       "  155,\n",
       "  132,\n",
       "  132,\n",
       "  365],\n",
       " 'CIC-206': [67,\n",
       "  150,\n",
       "  235,\n",
       "  130,\n",
       "  183,\n",
       "  166,\n",
       "  203,\n",
       "  226,\n",
       "  104,\n",
       "  1234,\n",
       "  188,\n",
       "  122,\n",
       "  167,\n",
       "  294,\n",
       "  326,\n",
       "  245,\n",
       "  155,\n",
       "  132,\n",
       "  132,\n",
       "  365]}"
      ]
     },
     "execution_count": 21,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "name_to_coding_exon_lengths"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 22,
   "id": "d09f3928",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "{'MXD4-201': 0,\n",
       " 'SLC12A6-202': 1,\n",
       " 'SLC12A6-201': 0,\n",
       " 'SLC12A6-221': 0,\n",
       " 'SLC12A6-204': 0,\n",
       " 'SLC12A6-217': 0,\n",
       " 'SLC12A6-205': 1,\n",
       " 'SLC12A6-203': 1,\n",
       " 'SLC12A6-216': 3,\n",
       " 'SLC12A6-207': 1,\n",
       " 'SLC12A6-206': 1,\n",
       " 'NSD3-202': 1,\n",
       " 'NSD3-203': 1,\n",
       " 'NSD3-206': 1,\n",
       " 'NSD3-201': 1,\n",
       " 'MGA-207': 1,\n",
       " 'MGA-201': 1,\n",
       " 'MGA-214': 1,\n",
       " 'BRD4-201': 1,\n",
       " 'BRD4-213': 1,\n",
       " 'BRD4-203': 1,\n",
       " 'BRD4-202': 1,\n",
       " 'BRD3-201': 1,\n",
       " 'BRD3-202': 1,\n",
       " 'NUTM1-203': 0,\n",
       " 'NUTM1-204': 1,\n",
       " 'NUTM1-202': 0,\n",
       " 'NUTM1-201': 0,\n",
       " 'YAP1-201': 0,\n",
       " 'YAP1-204': 0,\n",
       " 'YAP1-209': 0,\n",
       " 'YAP1-202': 0,\n",
       " 'YAP1-210': 0,\n",
       " 'YAP1-211': 0,\n",
       " 'YAP1-208': 0,\n",
       " 'YAP1-203': 1,\n",
       " 'CIC-203': 1,\n",
       " 'CIC-209': 1,\n",
       " 'CIC-201': 0,\n",
       " 'CIC-206': 0}"
      ]
     },
     "execution_count": 22,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "name_to_5prime_utr_exons_count = {}\n",
    "for name, ts in name_to_transcripts.items():\n",
    "    for t in ts:\n",
    "        if t.strand == \"+\":\n",
    "            start_codon_pos = min(t.start_codon_positions)\n",
    "            count = sum([\n",
    "                end < start_codon_pos\n",
    "                for (_, end) in t.exon_intervals])\n",
    "        else:\n",
    "            start_codon_pos = max(t.start_codon_positions)\n",
    "            count = sum([\n",
    "                start > start_codon_pos\n",
    "                for (start, end) in t.exon_intervals])\n",
    "        name_to_5prime_utr_exons_count[t.name] = count\n",
    "name_to_5prime_utr_exons_count"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 58,
   "id": "070e4098",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "MGA [22]\n",
      "-- MGA-207 21: 7117 (1)\n",
      "-- MGA-207 22: 7294 (1)\n",
      "-- MGA-201 21: 7510 (1)\n",
      "-- MGA-201 22: 7744 (1)\n",
      "-- MGA-214 21: 7657 (1)\n",
      "-- MGA-214 22: 7891 (1)\n",
      "BRD4 [10, 11, 12, 13, 14, 15]\n",
      "-- BRD4-201 9: 1751 (2)\n",
      "-- BRD4-201 10: 2047 (1)\n",
      "-- BRD4-201 11: 2158 (1)\n",
      "-- BRD4-201 12: 2211 (0)\n",
      "-- BRD4-201 13: 2581 (1)\n",
      "-- BRD4-201 14: 3169 (1)\n",
      "-- BRD4-201 15: 3282 (0)\n",
      "-- BRD4-213 9: 1751 (2)\n",
      "-- BRD4-213 10: 2047 (1)\n",
      "-- BRD4-213 11: 2158 (1)\n",
      "-- BRD4-213 12: 2211 (0)\n",
      "-- BRD4-213 13: 2581 (1)\n",
      "-- BRD4-213 14: 3169 (1)\n",
      "-- BRD4-213 15: 3282 (0)\n",
      "-- BRD4-203 9: 1751 (2)\n",
      "-- BRD4-203 10: 2047 (1)\n",
      "-- BRD4-203 11: 2158 (1)\n",
      "??? Transcript(transcript_id='ENST00000371835', transcript_name='BRD4-203', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15247047, end=15280451, strand='-', genome='GRCh38') has 12 exons, can't truncate at exon 12\n",
      "??? Transcript(transcript_id='ENST00000371835', transcript_name='BRD4-203', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15247047, end=15280451, strand='-', genome='GRCh38') has 12 exons, can't truncate at exon 13\n",
      "??? Transcript(transcript_id='ENST00000371835', transcript_name='BRD4-203', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15247047, end=15280451, strand='-', genome='GRCh38') has 12 exons, can't truncate at exon 14\n",
      "??? Transcript(transcript_id='ENST00000371835', transcript_name='BRD4-203', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15247047, end=15280451, strand='-', genome='GRCh38') has 12 exons, can't truncate at exon 15\n",
      "-- BRD4-202 9: 1751 (2)\n",
      "-- BRD4-202 10: 2047 (1)\n",
      "-- BRD4-202 11: 2158 (1)\n",
      "??? Transcript(transcript_id='ENST00000360016', transcript_name='BRD4-202', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15252992, end=15332545, strand='-', genome='GRCh38') has 12 exons, can't truncate at exon 12\n",
      "??? Transcript(transcript_id='ENST00000360016', transcript_name='BRD4-202', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15252992, end=15332545, strand='-', genome='GRCh38') has 12 exons, can't truncate at exon 13\n",
      "??? Transcript(transcript_id='ENST00000360016', transcript_name='BRD4-202', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15252992, end=15332545, strand='-', genome='GRCh38') has 12 exons, can't truncate at exon 14\n",
      "??? Transcript(transcript_id='ENST00000360016', transcript_name='BRD4-202', gene_id='ENSG00000141867', biotype='protein_coding', contig='19', start=15252992, end=15332545, strand='-', genome='GRCh38') has 12 exons, can't truncate at exon 15\n",
      "BRD3 [9]\n",
      "-- BRD3-201 8: 1407 (0)\n",
      "-- BRD3-201 9: 1643 (2)\n",
      "-- BRD3-202 8: 1407 (0)\n",
      "-- BRD3-202 9: 1643 (2)\n",
      "MXD4 [5]\n",
      "-- MXD4-201 4: 309 (0)\n",
      "-- MXD4-201 5: 472 (1)\n",
      "CIC [16, 17, 18, 19, 20]\n",
      "-- CIC-203 15: 6193 (1)\n",
      "-- CIC-203 16: 6516 (0)\n",
      "-- CIC-203 17: 6761 (2)\n",
      "-- CIC-203 18: 6913 (1)\n",
      "-- CIC-203 19: 7045 (1)\n",
      "-- CIC-203 20: 7177 (1)\n",
      "-- CIC-209 15: 6196 (1)\n",
      "-- CIC-209 16: 6522 (0)\n",
      "-- CIC-209 17: 6767 (2)\n",
      "-- CIC-209 18: 6922 (1)\n",
      "-- CIC-209 19: 7054 (1)\n",
      "-- CIC-209 20: 7186 (1)\n",
      "-- CIC-201 15: 3789 (0)\n",
      "-- CIC-201 16: 4034 (2)\n",
      "-- CIC-201 17: 4189 (1)\n",
      "-- CIC-201 18: 4321 (1)\n",
      "-- CIC-201 19: 4453 (1)\n",
      "??? Transcript(transcript_id='ENST00000160740', transcript_name='CIC-201', gene_id='ENSG00000079432', biotype='protein_coding', contig='19', start=42284020, end=42295796, strand='+', genome='GRCh38') has 20 exons, can't truncate at exon 20\n",
      "-- CIC-206 15: 3795 (0)\n",
      "-- CIC-206 16: 4040 (2)\n",
      "-- CIC-206 17: 4195 (1)\n",
      "-- CIC-206 18: 4327 (1)\n",
      "-- CIC-206 19: 4459 (1)\n",
      "??? Transcript(transcript_id='ENST00000575354', transcript_name='CIC-206', gene_id='ENSG00000079432', biotype='protein_coding', contig='19', start=42284665, end=42295797, strand='+', genome='GRCh38') has 20 exons, can't truncate at exon 20\n",
      "SLC12A6 [2]\n",
      "-- SLC12A6-202 1: 0 (0)\n",
      "-- SLC12A6-202 2: 271 (1)\n",
      "-- SLC12A6-201 1: 118 (1)\n",
      "-- SLC12A6-201 2: 163 (1)\n",
      "-- SLC12A6-221 1: 271 (1)\n",
      "-- SLC12A6-221 2: 316 (1)\n",
      "-- SLC12A6-204 1: 271 (1)\n",
      "-- SLC12A6-204 2: 366 (0)\n",
      "-- SLC12A6-217 1: 271 (1)\n",
      "-- SLC12A6-217 2: 316 (1)\n",
      "-- SLC12A6-205 1: 0 (0)\n",
      "-- SLC12A6-205 2: 94 (1)\n",
      "-- SLC12A6-203 1: 0 (0)\n",
      "-- SLC12A6-203 2: 94 (1)\n",
      "-- SLC12A6-216 1: 2663 (2)\n",
      "-- SLC12A6-216 2: 2797 (1)\n",
      "-- SLC12A6-207 1: 0 (0)\n",
      "-- SLC12A6-207 2: 271 (1)\n",
      "-- SLC12A6-206 1: 0 (0)\n",
      "-- SLC12A6-206 2: 244 (1)\n",
      "YAP1 [3]\n",
      "-- YAP1-201 2: 572 (2)\n",
      "-- YAP1-201 3: 688 (1)\n",
      "-- YAP1-204 2: 572 (2)\n",
      "-- YAP1-204 3: 688 (1)\n",
      "-- YAP1-209 2: 572 (2)\n",
      "-- YAP1-209 3: 688 (1)\n",
      "-- YAP1-202 2: 572 (2)\n",
      "-- YAP1-202 3: 688 (1)\n",
      "-- YAP1-210 2: 572 (2)\n",
      "-- YAP1-210 3: 688 (1)\n",
      "-- YAP1-211 2: 572 (2)\n",
      "-- YAP1-211 3: 688 (1)\n",
      "-- YAP1-208 2: 572 (2)\n",
      "-- YAP1-208 3: 688 (1)\n",
      "-- YAP1-203 2: 38 (2)\n",
      "-- YAP1-203 3: 154 (1)\n",
      "NSD3 [7]\n",
      "-- NSD3-202 6: 1581 (0)\n",
      "-- NSD3-202 7: 1708 (1)\n",
      "-- NSD3-203 6: 1581 (0)\n",
      "-- NSD3-203 7: 1708 (1)\n",
      "-- NSD3-206 6: 1581 (0)\n",
      "-- NSD3-206 7: 1708 (1)\n",
      "-- NSD3-201 6: 1581 (0)\n",
      "-- NSD3-201 7: 1708 (1)\n",
      "NUTM1 [2, 3, 4, 5, 6]\n",
      "-- NUTM1-203 1: 6 (0)\n",
      "-- NUTM1-203 2: 100 (1)\n",
      "-- NUTM1-203 3: 809 (2)\n",
      "-- NUTM1-203 4: 938 (2)\n",
      "-- NUTM1-203 5: 1075 (1)\n",
      "-- NUTM1-203 6: 1362 (0)\n",
      "-- NUTM1-204 1: 0 (0)\n",
      "-- NUTM1-204 2: 16 (1)\n",
      "-- NUTM1-204 3: 725 (2)\n",
      "-- NUTM1-204 4: 854 (2)\n",
      "-- NUTM1-204 5: 991 (1)\n",
      "-- NUTM1-204 6: 1278 (0)\n",
      "-- NUTM1-202 1: 70 (1)\n",
      "-- NUTM1-202 2: 779 (2)\n",
      "-- NUTM1-202 3: 908 (2)\n",
      "-- NUTM1-202 4: 1045 (1)\n",
      "-- NUTM1-202 5: 1332 (0)\n",
      "-- NUTM1-202 6: 1449 (0)\n",
      "-- NUTM1-201 1: 16 (1)\n",
      "-- NUTM1-201 2: 725 (2)\n",
      "-- NUTM1-201 3: 854 (2)\n",
      "-- NUTM1-201 4: 991 (1)\n",
      "-- NUTM1-201 5: 1278 (0)\n",
      "-- NUTM1-201 6: 1395 (0)\n"
     ]
    }
   ],
   "source": [
    "\n",
    "name_and_exon_to_cds_length = {}\n",
    "\n",
    "for gene_name, exon_numbers in list(five_prime_genes.items()) + [(\"NUTM1\", NUTM1_start_exons)]:\n",
    "    print(gene_name, exon_numbers) \n",
    "    exon_numbers = [min(exon_numbers) - 1] + exon_numbers\n",
    "    for t in name_to_transcripts[gene_name]:\n",
    "\n",
    "        num_utr_exons = name_to_5prime_utr_exons_count[t.name]\n",
    "        num_exons = len(t.exons)\n",
    "        for exon_number in exon_numbers:\n",
    "            if exon_number < num_exons:\n",
    "\n",
    "                cds_length = sum(name_to_coding_exon_lengths[t.name][:(exon_number - num_utr_exons)])\n",
    "                print(\"-- %s %d: %d (%d)\" % (t.name, exon_number, cds_length, cds_length % 3))\n",
    "\n",
    "                name_and_exon_to_cds_length[(t.name, exon_number)] = cds_length\n",
    "            else:\n",
    "                print(\"??? %s has %d exons, can't truncate at exon %d\" % (t, num_exons, exon_number))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 61,
   "id": "4137dfb2",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "MGA-207 exon 22, start phase 1, end phase 1\n",
      "MGA-201 exon 22, start phase 1, end phase 1\n",
      "MGA-214 exon 22, start phase 1, end phase 1\n",
      "BRD4-201 exon 10, start phase 2, end phase 1\n",
      "BRD4-213 exon 10, start phase 2, end phase 1\n",
      "BRD4-203 exon 10, start phase 2, end phase 1\n",
      "BRD4-202 exon 10, start phase 2, end phase 1\n",
      "BRD4-201 exon 11, start phase 1, end phase 1\n",
      "BRD4-213 exon 11, start phase 1, end phase 1\n",
      "BRD4-203 exon 11, start phase 1, end phase 1\n",
      "BRD4-202 exon 11, start phase 1, end phase 1\n",
      "BRD4-201 exon 12, start phase 1, end phase 0\n",
      "BRD4-213 exon 12, start phase 1, end phase 0\n",
      "Skipping ('BRD4-203', 12)\n",
      "Skipping ('BRD4-202', 12)\n",
      "BRD4-201 exon 13, start phase 0, end phase 1\n",
      "BRD4-213 exon 13, start phase 0, end phase 1\n",
      "Skipping ('BRD4-203', 12)\n",
      "Skipping ('BRD4-202', 12)\n",
      "BRD4-201 exon 14, start phase 1, end phase 1\n",
      "BRD4-213 exon 14, start phase 1, end phase 1\n",
      "Skipping ('BRD4-203', 13)\n",
      "Skipping ('BRD4-202', 13)\n",
      "BRD4-201 exon 15, start phase 1, end phase 0\n",
      "BRD4-213 exon 15, start phase 1, end phase 0\n",
      "Skipping ('BRD4-203', 14)\n",
      "Skipping ('BRD4-202', 14)\n",
      "BRD3-201 exon 9, start phase 0, end phase 2\n",
      "BRD3-202 exon 9, start phase 0, end phase 2\n",
      "MXD4-201 exon 5, start phase 0, end phase 1\n",
      "CIC-203 exon 16, start phase 1, end phase 0\n",
      "CIC-209 exon 16, start phase 1, end phase 0\n",
      "CIC-201 exon 16, start phase 0, end phase 2\n",
      "CIC-206 exon 16, start phase 0, end phase 2\n",
      "CIC-203 exon 17, start phase 0, end phase 2\n",
      "CIC-209 exon 17, start phase 0, end phase 2\n",
      "CIC-201 exon 17, start phase 2, end phase 1\n",
      "CIC-206 exon 17, start phase 2, end phase 1\n",
      "CIC-203 exon 18, start phase 2, end phase 1\n",
      "CIC-209 exon 18, start phase 2, end phase 1\n",
      "CIC-201 exon 18, start phase 1, end phase 1\n",
      "CIC-206 exon 18, start phase 1, end phase 1\n",
      "CIC-203 exon 19, start phase 1, end phase 1\n",
      "CIC-209 exon 19, start phase 1, end phase 1\n",
      "CIC-201 exon 19, start phase 1, end phase 1\n",
      "CIC-206 exon 19, start phase 1, end phase 1\n",
      "CIC-203 exon 20, start phase 1, end phase 1\n",
      "CIC-209 exon 20, start phase 1, end phase 1\n",
      "Skipping ('CIC-201', 20)\n",
      "Skipping ('CIC-206', 20)\n",
      "SLC12A6-202 exon 2, start phase 0, end phase 1\n",
      "SLC12A6-201 exon 2, start phase 1, end phase 1\n",
      "SLC12A6-221 exon 2, start phase 1, end phase 1\n",
      "SLC12A6-204 exon 2, start phase 1, end phase 0\n",
      "SLC12A6-217 exon 2, start phase 1, end phase 1\n",
      "SLC12A6-205 exon 2, start phase 0, end phase 1\n",
      "SLC12A6-203 exon 2, start phase 0, end phase 1\n",
      "SLC12A6-216 exon 2, start phase 2, end phase 1\n",
      "SLC12A6-207 exon 2, start phase 0, end phase 1\n",
      "SLC12A6-206 exon 2, start phase 0, end phase 1\n",
      "YAP1-201 exon 3, start phase 2, end phase 1\n",
      "YAP1-204 exon 3, start phase 2, end phase 1\n",
      "YAP1-209 exon 3, start phase 2, end phase 1\n",
      "YAP1-202 exon 3, start phase 2, end phase 1\n",
      "YAP1-210 exon 3, start phase 2, end phase 1\n",
      "YAP1-211 exon 3, start phase 2, end phase 1\n",
      "YAP1-208 exon 3, start phase 2, end phase 1\n",
      "YAP1-203 exon 3, start phase 2, end phase 1\n",
      "NSD3-202 exon 7, start phase 0, end phase 1\n",
      "NSD3-203 exon 7, start phase 0, end phase 1\n",
      "NSD3-206 exon 7, start phase 0, end phase 1\n",
      "NSD3-201 exon 7, start phase 0, end phase 1\n",
      "NUTM1-203 exon 2, start phase 0, end phase 1\n",
      "NUTM1-204 exon 2, start phase 0, end phase 1\n",
      "NUTM1-202 exon 2, start phase 1, end phase 2\n",
      "NUTM1-201 exon 2, start phase 1, end phase 2\n",
      "NUTM1-203 exon 3, start phase 1, end phase 2\n",
      "NUTM1-204 exon 3, start phase 1, end phase 2\n",
      "NUTM1-202 exon 3, start phase 2, end phase 2\n",
      "NUTM1-201 exon 3, start phase 2, end phase 2\n",
      "NUTM1-203 exon 4, start phase 2, end phase 2\n",
      "NUTM1-204 exon 4, start phase 2, end phase 2\n",
      "NUTM1-202 exon 4, start phase 2, end phase 1\n",
      "NUTM1-201 exon 4, start phase 2, end phase 1\n",
      "NUTM1-203 exon 5, start phase 2, end phase 1\n",
      "NUTM1-204 exon 5, start phase 2, end phase 1\n",
      "NUTM1-202 exon 5, start phase 1, end phase 0\n",
      "NUTM1-201 exon 5, start phase 1, end phase 0\n",
      "NUTM1-203 exon 6, start phase 1, end phase 0\n",
      "NUTM1-204 exon 6, start phase 1, end phase 0\n",
      "NUTM1-202 exon 6, start phase 0, end phase 0\n",
      "NUTM1-201 exon 6, start phase 0, end phase 0\n"
     ]
    }
   ],
   "source": [
    "\n",
    "name_and_exon_start_phase = {}\n",
    "name_and_exon_end_phase = {}\n",
    "for gene_name, exon_numbers in list(five_prime_genes.items()) + [(\"NUTM1\", NUTM1_start_exons)]:\n",
    "    for exon_number in exon_numbers:\n",
    "        for t in name_to_transcripts[gene_name]:\n",
    "            key_prev = (t.name, exon_number - 1)\n",
    "            if key_prev in name_and_exon_to_cds_length:\n",
    "                \n",
    "                cds_length_prev = name_and_exon_to_cds_length[(t.name, exon_number - 1)]\n",
    "            else:\n",
    "                print(\"Skipping %s\" % (key_prev,))\n",
    "                continue\n",
    "            key = (t.name, exon_number)\n",
    "            if key in name_and_exon_to_cds_length:\n",
    "                cds_length = name_and_exon_to_cds_length[(t.name, exon_number)]\n",
    "            else:\n",
    "                print(\"Skipping %s\" % (key,))\n",
    "                continue\n",
    "                \n",
    "            start_phase = cds_length_prev % 3\n",
    "            end_phase = cds_length % 3\n",
    "            name_and_exon_start_phase[(t.name, exon_number)] = start_phase\n",
    "            name_and_exon_end_phase[(t.name, exon_number)] = end_phase\n",
    "            print(\"%s exon %d, start phase %d, end phase %d\" % (t.name, exon_number, start_phase, end_phase))\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 64,
   "id": "708c51f4",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "MGA-207 exon 22 -> NUTM1-203 exon 3\n",
      "MGA-207 exon 22 -> NUTM1-203 exon 6\n",
      "MGA-207 exon 22 -> NUTM1-204 exon 3\n",
      "MGA-207 exon 22 -> NUTM1-204 exon 6\n",
      "MGA-207 exon 22 -> NUTM1-202 exon 2\n",
      "MGA-207 exon 22 -> NUTM1-202 exon 5\n",
      "MGA-207 exon 22 -> NUTM1-201 exon 2\n",
      "MGA-207 exon 22 -> NUTM1-201 exon 5\n",
      "MGA-201 exon 22 -> NUTM1-203 exon 3\n",
      "MGA-201 exon 22 -> NUTM1-203 exon 6\n",
      "MGA-201 exon 22 -> NUTM1-204 exon 3\n",
      "MGA-201 exon 22 -> NUTM1-204 exon 6\n",
      "MGA-201 exon 22 -> NUTM1-202 exon 2\n",
      "MGA-201 exon 22 -> NUTM1-202 exon 5\n",
      "MGA-201 exon 22 -> NUTM1-201 exon 2\n",
      "MGA-201 exon 22 -> NUTM1-201 exon 5\n",
      "MGA-214 exon 22 -> NUTM1-203 exon 3\n",
      "MGA-214 exon 22 -> NUTM1-203 exon 6\n",
      "MGA-214 exon 22 -> NUTM1-204 exon 3\n",
      "MGA-214 exon 22 -> NUTM1-204 exon 6\n",
      "MGA-214 exon 22 -> NUTM1-202 exon 2\n",
      "MGA-214 exon 22 -> NUTM1-202 exon 5\n",
      "MGA-214 exon 22 -> NUTM1-201 exon 2\n",
      "MGA-214 exon 22 -> NUTM1-201 exon 5\n",
      "BRD4-201 exon 10 -> NUTM1-203 exon 3\n",
      "BRD4-201 exon 10 -> NUTM1-203 exon 6\n",
      "BRD4-201 exon 10 -> NUTM1-204 exon 3\n",
      "BRD4-201 exon 10 -> NUTM1-204 exon 6\n",
      "BRD4-201 exon 10 -> NUTM1-202 exon 2\n",
      "BRD4-201 exon 10 -> NUTM1-202 exon 5\n",
      "BRD4-201 exon 10 -> NUTM1-201 exon 2\n",
      "BRD4-201 exon 10 -> NUTM1-201 exon 5\n",
      "BRD4-213 exon 10 -> NUTM1-203 exon 3\n",
      "BRD4-213 exon 10 -> NUTM1-203 exon 6\n",
      "BRD4-213 exon 10 -> NUTM1-204 exon 3\n",
      "BRD4-213 exon 10 -> NUTM1-204 exon 6\n",
      "BRD4-213 exon 10 -> NUTM1-202 exon 2\n",
      "BRD4-213 exon 10 -> NUTM1-202 exon 5\n",
      "BRD4-213 exon 10 -> NUTM1-201 exon 2\n",
      "BRD4-213 exon 10 -> NUTM1-201 exon 5\n",
      "BRD4-203 exon 10 -> NUTM1-203 exon 3\n",
      "BRD4-203 exon 10 -> NUTM1-203 exon 6\n",
      "BRD4-203 exon 10 -> NUTM1-204 exon 3\n",
      "BRD4-203 exon 10 -> NUTM1-204 exon 6\n",
      "BRD4-203 exon 10 -> NUTM1-202 exon 2\n",
      "BRD4-203 exon 10 -> NUTM1-202 exon 5\n",
      "BRD4-203 exon 10 -> NUTM1-201 exon 2\n",
      "BRD4-203 exon 10 -> NUTM1-201 exon 5\n",
      "BRD4-202 exon 10 -> NUTM1-203 exon 3\n",
      "BRD4-202 exon 10 -> NUTM1-203 exon 6\n",
      "BRD4-202 exon 10 -> NUTM1-204 exon 3\n",
      "BRD4-202 exon 10 -> NUTM1-204 exon 6\n",
      "BRD4-202 exon 10 -> NUTM1-202 exon 2\n",
      "BRD4-202 exon 10 -> NUTM1-202 exon 5\n",
      "BRD4-202 exon 10 -> NUTM1-201 exon 2\n",
      "BRD4-202 exon 10 -> NUTM1-201 exon 5\n",
      "BRD4-201 exon 11 -> NUTM1-203 exon 3\n",
      "BRD4-201 exon 11 -> NUTM1-203 exon 6\n",
      "BRD4-201 exon 11 -> NUTM1-204 exon 3\n",
      "BRD4-201 exon 11 -> NUTM1-204 exon 6\n",
      "BRD4-201 exon 11 -> NUTM1-202 exon 2\n",
      "BRD4-201 exon 11 -> NUTM1-202 exon 5\n",
      "BRD4-201 exon 11 -> NUTM1-201 exon 2\n",
      "BRD4-201 exon 11 -> NUTM1-201 exon 5\n",
      "BRD4-213 exon 11 -> NUTM1-203 exon 3\n",
      "BRD4-213 exon 11 -> NUTM1-203 exon 6\n",
      "BRD4-213 exon 11 -> NUTM1-204 exon 3\n",
      "BRD4-213 exon 11 -> NUTM1-204 exon 6\n",
      "BRD4-213 exon 11 -> NUTM1-202 exon 2\n",
      "BRD4-213 exon 11 -> NUTM1-202 exon 5\n",
      "BRD4-213 exon 11 -> NUTM1-201 exon 2\n",
      "BRD4-213 exon 11 -> NUTM1-201 exon 5\n",
      "BRD4-203 exon 11 -> NUTM1-203 exon 3\n",
      "BRD4-203 exon 11 -> NUTM1-203 exon 6\n",
      "BRD4-203 exon 11 -> NUTM1-204 exon 3\n",
      "BRD4-203 exon 11 -> NUTM1-204 exon 6\n",
      "BRD4-203 exon 11 -> NUTM1-202 exon 2\n",
      "BRD4-203 exon 11 -> NUTM1-202 exon 5\n",
      "BRD4-203 exon 11 -> NUTM1-201 exon 2\n",
      "BRD4-203 exon 11 -> NUTM1-201 exon 5\n",
      "BRD4-202 exon 11 -> NUTM1-203 exon 3\n",
      "BRD4-202 exon 11 -> NUTM1-203 exon 6\n",
      "BRD4-202 exon 11 -> NUTM1-204 exon 3\n",
      "BRD4-202 exon 11 -> NUTM1-204 exon 6\n",
      "BRD4-202 exon 11 -> NUTM1-202 exon 2\n",
      "BRD4-202 exon 11 -> NUTM1-202 exon 5\n",
      "BRD4-202 exon 11 -> NUTM1-201 exon 2\n",
      "BRD4-202 exon 11 -> NUTM1-201 exon 5\n",
      "BRD4-201 exon 12 -> NUTM1-203 exon 2\n",
      "BRD4-201 exon 12 -> NUTM1-204 exon 2\n",
      "BRD4-201 exon 12 -> NUTM1-202 exon 6\n",
      "BRD4-201 exon 12 -> NUTM1-201 exon 6\n",
      "BRD4-213 exon 12 -> NUTM1-203 exon 2\n",
      "BRD4-213 exon 12 -> NUTM1-204 exon 2\n",
      "BRD4-213 exon 12 -> NUTM1-202 exon 6\n",
      "BRD4-213 exon 12 -> NUTM1-201 exon 6\n",
      "Skipping ('BRD4-203', 12)\n",
      "Skipping ('BRD4-202', 12)\n",
      "BRD4-201 exon 13 -> NUTM1-203 exon 3\n",
      "BRD4-201 exon 13 -> NUTM1-203 exon 6\n",
      "BRD4-201 exon 13 -> NUTM1-204 exon 3\n",
      "BRD4-201 exon 13 -> NUTM1-204 exon 6\n",
      "BRD4-201 exon 13 -> NUTM1-202 exon 2\n",
      "BRD4-201 exon 13 -> NUTM1-202 exon 5\n",
      "BRD4-201 exon 13 -> NUTM1-201 exon 2\n",
      "BRD4-201 exon 13 -> NUTM1-201 exon 5\n",
      "BRD4-213 exon 13 -> NUTM1-203 exon 3\n",
      "BRD4-213 exon 13 -> NUTM1-203 exon 6\n",
      "BRD4-213 exon 13 -> NUTM1-204 exon 3\n",
      "BRD4-213 exon 13 -> NUTM1-204 exon 6\n",
      "BRD4-213 exon 13 -> NUTM1-202 exon 2\n",
      "BRD4-213 exon 13 -> NUTM1-202 exon 5\n",
      "BRD4-213 exon 13 -> NUTM1-201 exon 2\n",
      "BRD4-213 exon 13 -> NUTM1-201 exon 5\n",
      "Skipping ('BRD4-203', 13)\n",
      "Skipping ('BRD4-202', 13)\n",
      "BRD4-201 exon 14 -> NUTM1-203 exon 3\n",
      "BRD4-201 exon 14 -> NUTM1-203 exon 6\n",
      "BRD4-201 exon 14 -> NUTM1-204 exon 3\n",
      "BRD4-201 exon 14 -> NUTM1-204 exon 6\n",
      "BRD4-201 exon 14 -> NUTM1-202 exon 2\n",
      "BRD4-201 exon 14 -> NUTM1-202 exon 5\n",
      "BRD4-201 exon 14 -> NUTM1-201 exon 2\n",
      "BRD4-201 exon 14 -> NUTM1-201 exon 5\n",
      "BRD4-213 exon 14 -> NUTM1-203 exon 3\n",
      "BRD4-213 exon 14 -> NUTM1-203 exon 6\n",
      "BRD4-213 exon 14 -> NUTM1-204 exon 3\n",
      "BRD4-213 exon 14 -> NUTM1-204 exon 6\n",
      "BRD4-213 exon 14 -> NUTM1-202 exon 2\n",
      "BRD4-213 exon 14 -> NUTM1-202 exon 5\n",
      "BRD4-213 exon 14 -> NUTM1-201 exon 2\n",
      "BRD4-213 exon 14 -> NUTM1-201 exon 5\n",
      "Skipping ('BRD4-203', 14)\n",
      "Skipping ('BRD4-202', 14)\n",
      "BRD4-201 exon 15 -> NUTM1-203 exon 2\n",
      "BRD4-201 exon 15 -> NUTM1-204 exon 2\n",
      "BRD4-201 exon 15 -> NUTM1-202 exon 6\n",
      "BRD4-201 exon 15 -> NUTM1-201 exon 6\n",
      "BRD4-213 exon 15 -> NUTM1-203 exon 2\n",
      "BRD4-213 exon 15 -> NUTM1-204 exon 2\n",
      "BRD4-213 exon 15 -> NUTM1-202 exon 6\n",
      "BRD4-213 exon 15 -> NUTM1-201 exon 6\n",
      "Skipping ('BRD4-203', 15)\n",
      "Skipping ('BRD4-202', 15)\n",
      "BRD3-201 exon 9 -> NUTM1-203 exon 4\n",
      "BRD3-201 exon 9 -> NUTM1-203 exon 5\n",
      "BRD3-201 exon 9 -> NUTM1-204 exon 4\n",
      "BRD3-201 exon 9 -> NUTM1-204 exon 5\n",
      "BRD3-201 exon 9 -> NUTM1-202 exon 3\n",
      "BRD3-201 exon 9 -> NUTM1-202 exon 4\n",
      "BRD3-201 exon 9 -> NUTM1-201 exon 3\n",
      "BRD3-201 exon 9 -> NUTM1-201 exon 4\n",
      "BRD3-202 exon 9 -> NUTM1-203 exon 4\n",
      "BRD3-202 exon 9 -> NUTM1-203 exon 5\n",
      "BRD3-202 exon 9 -> NUTM1-204 exon 4\n",
      "BRD3-202 exon 9 -> NUTM1-204 exon 5\n",
      "BRD3-202 exon 9 -> NUTM1-202 exon 3\n",
      "BRD3-202 exon 9 -> NUTM1-202 exon 4\n",
      "BRD3-202 exon 9 -> NUTM1-201 exon 3\n",
      "BRD3-202 exon 9 -> NUTM1-201 exon 4\n",
      "MXD4-201 exon 5 -> NUTM1-203 exon 3\n",
      "MXD4-201 exon 5 -> NUTM1-203 exon 6\n",
      "MXD4-201 exon 5 -> NUTM1-204 exon 3\n",
      "MXD4-201 exon 5 -> NUTM1-204 exon 6\n",
      "MXD4-201 exon 5 -> NUTM1-202 exon 2\n",
      "MXD4-201 exon 5 -> NUTM1-202 exon 5\n",
      "MXD4-201 exon 5 -> NUTM1-201 exon 2\n",
      "MXD4-201 exon 5 -> NUTM1-201 exon 5\n",
      "CIC-203 exon 16 -> NUTM1-203 exon 2\n",
      "CIC-203 exon 16 -> NUTM1-204 exon 2\n",
      "CIC-203 exon 16 -> NUTM1-202 exon 6\n",
      "CIC-203 exon 16 -> NUTM1-201 exon 6\n",
      "CIC-209 exon 16 -> NUTM1-203 exon 2\n",
      "CIC-209 exon 16 -> NUTM1-204 exon 2\n",
      "CIC-209 exon 16 -> NUTM1-202 exon 6\n",
      "CIC-209 exon 16 -> NUTM1-201 exon 6\n",
      "CIC-201 exon 16 -> NUTM1-203 exon 4\n",
      "CIC-201 exon 16 -> NUTM1-203 exon 5\n",
      "CIC-201 exon 16 -> NUTM1-204 exon 4\n",
      "CIC-201 exon 16 -> NUTM1-204 exon 5\n",
      "CIC-201 exon 16 -> NUTM1-202 exon 3\n",
      "CIC-201 exon 16 -> NUTM1-202 exon 4\n",
      "CIC-201 exon 16 -> NUTM1-201 exon 3\n",
      "CIC-201 exon 16 -> NUTM1-201 exon 4\n",
      "CIC-206 exon 16 -> NUTM1-203 exon 4\n",
      "CIC-206 exon 16 -> NUTM1-203 exon 5\n",
      "CIC-206 exon 16 -> NUTM1-204 exon 4\n",
      "CIC-206 exon 16 -> NUTM1-204 exon 5\n",
      "CIC-206 exon 16 -> NUTM1-202 exon 3\n",
      "CIC-206 exon 16 -> NUTM1-202 exon 4\n",
      "CIC-206 exon 16 -> NUTM1-201 exon 3\n",
      "CIC-206 exon 16 -> NUTM1-201 exon 4\n",
      "CIC-203 exon 17 -> NUTM1-203 exon 4\n",
      "CIC-203 exon 17 -> NUTM1-203 exon 5\n",
      "CIC-203 exon 17 -> NUTM1-204 exon 4\n",
      "CIC-203 exon 17 -> NUTM1-204 exon 5\n",
      "CIC-203 exon 17 -> NUTM1-202 exon 3\n",
      "CIC-203 exon 17 -> NUTM1-202 exon 4\n",
      "CIC-203 exon 17 -> NUTM1-201 exon 3\n",
      "CIC-203 exon 17 -> NUTM1-201 exon 4\n",
      "CIC-209 exon 17 -> NUTM1-203 exon 4\n",
      "CIC-209 exon 17 -> NUTM1-203 exon 5\n",
      "CIC-209 exon 17 -> NUTM1-204 exon 4\n",
      "CIC-209 exon 17 -> NUTM1-204 exon 5\n",
      "CIC-209 exon 17 -> NUTM1-202 exon 3\n",
      "CIC-209 exon 17 -> NUTM1-202 exon 4\n",
      "CIC-209 exon 17 -> NUTM1-201 exon 3\n",
      "CIC-209 exon 17 -> NUTM1-201 exon 4\n",
      "CIC-201 exon 17 -> NUTM1-203 exon 3\n",
      "CIC-201 exon 17 -> NUTM1-203 exon 6\n",
      "CIC-201 exon 17 -> NUTM1-204 exon 3\n",
      "CIC-201 exon 17 -> NUTM1-204 exon 6\n",
      "CIC-201 exon 17 -> NUTM1-202 exon 2\n",
      "CIC-201 exon 17 -> NUTM1-202 exon 5\n",
      "CIC-201 exon 17 -> NUTM1-201 exon 2\n",
      "CIC-201 exon 17 -> NUTM1-201 exon 5\n",
      "CIC-206 exon 17 -> NUTM1-203 exon 3\n",
      "CIC-206 exon 17 -> NUTM1-203 exon 6\n",
      "CIC-206 exon 17 -> NUTM1-204 exon 3\n",
      "CIC-206 exon 17 -> NUTM1-204 exon 6\n",
      "CIC-206 exon 17 -> NUTM1-202 exon 2\n",
      "CIC-206 exon 17 -> NUTM1-202 exon 5\n",
      "CIC-206 exon 17 -> NUTM1-201 exon 2\n",
      "CIC-206 exon 17 -> NUTM1-201 exon 5\n",
      "CIC-203 exon 18 -> NUTM1-203 exon 3\n",
      "CIC-203 exon 18 -> NUTM1-203 exon 6\n",
      "CIC-203 exon 18 -> NUTM1-204 exon 3\n",
      "CIC-203 exon 18 -> NUTM1-204 exon 6\n",
      "CIC-203 exon 18 -> NUTM1-202 exon 2\n",
      "CIC-203 exon 18 -> NUTM1-202 exon 5\n",
      "CIC-203 exon 18 -> NUTM1-201 exon 2\n",
      "CIC-203 exon 18 -> NUTM1-201 exon 5\n",
      "CIC-209 exon 18 -> NUTM1-203 exon 3\n",
      "CIC-209 exon 18 -> NUTM1-203 exon 6\n",
      "CIC-209 exon 18 -> NUTM1-204 exon 3\n",
      "CIC-209 exon 18 -> NUTM1-204 exon 6\n",
      "CIC-209 exon 18 -> NUTM1-202 exon 2\n",
      "CIC-209 exon 18 -> NUTM1-202 exon 5\n",
      "CIC-209 exon 18 -> NUTM1-201 exon 2\n",
      "CIC-209 exon 18 -> NUTM1-201 exon 5\n",
      "CIC-201 exon 18 -> NUTM1-203 exon 3\n",
      "CIC-201 exon 18 -> NUTM1-203 exon 6\n",
      "CIC-201 exon 18 -> NUTM1-204 exon 3\n",
      "CIC-201 exon 18 -> NUTM1-204 exon 6\n",
      "CIC-201 exon 18 -> NUTM1-202 exon 2\n",
      "CIC-201 exon 18 -> NUTM1-202 exon 5\n",
      "CIC-201 exon 18 -> NUTM1-201 exon 2\n",
      "CIC-201 exon 18 -> NUTM1-201 exon 5\n",
      "CIC-206 exon 18 -> NUTM1-203 exon 3\n",
      "CIC-206 exon 18 -> NUTM1-203 exon 6\n",
      "CIC-206 exon 18 -> NUTM1-204 exon 3\n",
      "CIC-206 exon 18 -> NUTM1-204 exon 6\n",
      "CIC-206 exon 18 -> NUTM1-202 exon 2\n",
      "CIC-206 exon 18 -> NUTM1-202 exon 5\n",
      "CIC-206 exon 18 -> NUTM1-201 exon 2\n",
      "CIC-206 exon 18 -> NUTM1-201 exon 5\n",
      "CIC-203 exon 19 -> NUTM1-203 exon 3\n",
      "CIC-203 exon 19 -> NUTM1-203 exon 6\n",
      "CIC-203 exon 19 -> NUTM1-204 exon 3\n",
      "CIC-203 exon 19 -> NUTM1-204 exon 6\n",
      "CIC-203 exon 19 -> NUTM1-202 exon 2\n",
      "CIC-203 exon 19 -> NUTM1-202 exon 5\n",
      "CIC-203 exon 19 -> NUTM1-201 exon 2\n",
      "CIC-203 exon 19 -> NUTM1-201 exon 5\n",
      "CIC-209 exon 19 -> NUTM1-203 exon 3\n",
      "CIC-209 exon 19 -> NUTM1-203 exon 6\n",
      "CIC-209 exon 19 -> NUTM1-204 exon 3\n",
      "CIC-209 exon 19 -> NUTM1-204 exon 6\n",
      "CIC-209 exon 19 -> NUTM1-202 exon 2\n",
      "CIC-209 exon 19 -> NUTM1-202 exon 5\n",
      "CIC-209 exon 19 -> NUTM1-201 exon 2\n",
      "CIC-209 exon 19 -> NUTM1-201 exon 5\n",
      "CIC-201 exon 19 -> NUTM1-203 exon 3\n",
      "CIC-201 exon 19 -> NUTM1-203 exon 6\n",
      "CIC-201 exon 19 -> NUTM1-204 exon 3\n",
      "CIC-201 exon 19 -> NUTM1-204 exon 6\n",
      "CIC-201 exon 19 -> NUTM1-202 exon 2\n",
      "CIC-201 exon 19 -> NUTM1-202 exon 5\n",
      "CIC-201 exon 19 -> NUTM1-201 exon 2\n",
      "CIC-201 exon 19 -> NUTM1-201 exon 5\n",
      "CIC-206 exon 19 -> NUTM1-203 exon 3\n",
      "CIC-206 exon 19 -> NUTM1-203 exon 6\n",
      "CIC-206 exon 19 -> NUTM1-204 exon 3\n",
      "CIC-206 exon 19 -> NUTM1-204 exon 6\n",
      "CIC-206 exon 19 -> NUTM1-202 exon 2\n",
      "CIC-206 exon 19 -> NUTM1-202 exon 5\n",
      "CIC-206 exon 19 -> NUTM1-201 exon 2\n",
      "CIC-206 exon 19 -> NUTM1-201 exon 5\n",
      "CIC-203 exon 20 -> NUTM1-203 exon 3\n",
      "CIC-203 exon 20 -> NUTM1-203 exon 6\n",
      "CIC-203 exon 20 -> NUTM1-204 exon 3\n",
      "CIC-203 exon 20 -> NUTM1-204 exon 6\n",
      "CIC-203 exon 20 -> NUTM1-202 exon 2\n",
      "CIC-203 exon 20 -> NUTM1-202 exon 5\n",
      "CIC-203 exon 20 -> NUTM1-201 exon 2\n",
      "CIC-203 exon 20 -> NUTM1-201 exon 5\n",
      "CIC-209 exon 20 -> NUTM1-203 exon 3\n",
      "CIC-209 exon 20 -> NUTM1-203 exon 6\n",
      "CIC-209 exon 20 -> NUTM1-204 exon 3\n",
      "CIC-209 exon 20 -> NUTM1-204 exon 6\n",
      "CIC-209 exon 20 -> NUTM1-202 exon 2\n",
      "CIC-209 exon 20 -> NUTM1-202 exon 5\n",
      "CIC-209 exon 20 -> NUTM1-201 exon 2\n",
      "CIC-209 exon 20 -> NUTM1-201 exon 5\n",
      "Skipping ('CIC-201', 20)\n",
      "Skipping ('CIC-206', 20)\n",
      "SLC12A6-202 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-202 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-202 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-202 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-202 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-202 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-202 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-202 exon 2 -> NUTM1-201 exon 5\n",
      "SLC12A6-201 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-201 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-201 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-201 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-201 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-201 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-201 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-201 exon 2 -> NUTM1-201 exon 5\n",
      "SLC12A6-221 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-221 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-221 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-221 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-221 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-221 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-221 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-221 exon 2 -> NUTM1-201 exon 5\n",
      "SLC12A6-204 exon 2 -> NUTM1-203 exon 2\n",
      "SLC12A6-204 exon 2 -> NUTM1-204 exon 2\n",
      "SLC12A6-204 exon 2 -> NUTM1-202 exon 6\n",
      "SLC12A6-204 exon 2 -> NUTM1-201 exon 6\n",
      "SLC12A6-217 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-217 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-217 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-217 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-217 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-217 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-217 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-217 exon 2 -> NUTM1-201 exon 5\n",
      "SLC12A6-205 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-205 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-205 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-205 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-205 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-205 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-205 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-205 exon 2 -> NUTM1-201 exon 5\n",
      "SLC12A6-203 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-203 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-203 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-203 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-203 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-203 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-203 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-203 exon 2 -> NUTM1-201 exon 5\n",
      "SLC12A6-216 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-216 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-216 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-216 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-216 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-216 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-216 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-216 exon 2 -> NUTM1-201 exon 5\n",
      "SLC12A6-207 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-207 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-207 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-207 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-207 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-207 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-207 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-207 exon 2 -> NUTM1-201 exon 5\n",
      "SLC12A6-206 exon 2 -> NUTM1-203 exon 3\n",
      "SLC12A6-206 exon 2 -> NUTM1-203 exon 6\n",
      "SLC12A6-206 exon 2 -> NUTM1-204 exon 3\n",
      "SLC12A6-206 exon 2 -> NUTM1-204 exon 6\n",
      "SLC12A6-206 exon 2 -> NUTM1-202 exon 2\n",
      "SLC12A6-206 exon 2 -> NUTM1-202 exon 5\n",
      "SLC12A6-206 exon 2 -> NUTM1-201 exon 2\n",
      "SLC12A6-206 exon 2 -> NUTM1-201 exon 5\n",
      "YAP1-201 exon 3 -> NUTM1-203 exon 3\n",
      "YAP1-201 exon 3 -> NUTM1-203 exon 6\n",
      "YAP1-201 exon 3 -> NUTM1-204 exon 3\n",
      "YAP1-201 exon 3 -> NUTM1-204 exon 6\n",
      "YAP1-201 exon 3 -> NUTM1-202 exon 2\n",
      "YAP1-201 exon 3 -> NUTM1-202 exon 5\n",
      "YAP1-201 exon 3 -> NUTM1-201 exon 2\n",
      "YAP1-201 exon 3 -> NUTM1-201 exon 5\n",
      "YAP1-204 exon 3 -> NUTM1-203 exon 3\n",
      "YAP1-204 exon 3 -> NUTM1-203 exon 6\n",
      "YAP1-204 exon 3 -> NUTM1-204 exon 3\n",
      "YAP1-204 exon 3 -> NUTM1-204 exon 6\n",
      "YAP1-204 exon 3 -> NUTM1-202 exon 2\n",
      "YAP1-204 exon 3 -> NUTM1-202 exon 5\n",
      "YAP1-204 exon 3 -> NUTM1-201 exon 2\n",
      "YAP1-204 exon 3 -> NUTM1-201 exon 5\n",
      "YAP1-209 exon 3 -> NUTM1-203 exon 3\n",
      "YAP1-209 exon 3 -> NUTM1-203 exon 6\n",
      "YAP1-209 exon 3 -> NUTM1-204 exon 3\n",
      "YAP1-209 exon 3 -> NUTM1-204 exon 6\n",
      "YAP1-209 exon 3 -> NUTM1-202 exon 2\n",
      "YAP1-209 exon 3 -> NUTM1-202 exon 5\n",
      "YAP1-209 exon 3 -> NUTM1-201 exon 2\n",
      "YAP1-209 exon 3 -> NUTM1-201 exon 5\n",
      "YAP1-202 exon 3 -> NUTM1-203 exon 3\n",
      "YAP1-202 exon 3 -> NUTM1-203 exon 6\n",
      "YAP1-202 exon 3 -> NUTM1-204 exon 3\n",
      "YAP1-202 exon 3 -> NUTM1-204 exon 6\n",
      "YAP1-202 exon 3 -> NUTM1-202 exon 2\n",
      "YAP1-202 exon 3 -> NUTM1-202 exon 5\n",
      "YAP1-202 exon 3 -> NUTM1-201 exon 2\n",
      "YAP1-202 exon 3 -> NUTM1-201 exon 5\n",
      "YAP1-210 exon 3 -> NUTM1-203 exon 3\n",
      "YAP1-210 exon 3 -> NUTM1-203 exon 6\n",
      "YAP1-210 exon 3 -> NUTM1-204 exon 3\n",
      "YAP1-210 exon 3 -> NUTM1-204 exon 6\n",
      "YAP1-210 exon 3 -> NUTM1-202 exon 2\n",
      "YAP1-210 exon 3 -> NUTM1-202 exon 5\n",
      "YAP1-210 exon 3 -> NUTM1-201 exon 2\n",
      "YAP1-210 exon 3 -> NUTM1-201 exon 5\n",
      "YAP1-211 exon 3 -> NUTM1-203 exon 3\n",
      "YAP1-211 exon 3 -> NUTM1-203 exon 6\n",
      "YAP1-211 exon 3 -> NUTM1-204 exon 3\n",
      "YAP1-211 exon 3 -> NUTM1-204 exon 6\n",
      "YAP1-211 exon 3 -> NUTM1-202 exon 2\n",
      "YAP1-211 exon 3 -> NUTM1-202 exon 5\n",
      "YAP1-211 exon 3 -> NUTM1-201 exon 2\n",
      "YAP1-211 exon 3 -> NUTM1-201 exon 5\n",
      "YAP1-208 exon 3 -> NUTM1-203 exon 3\n",
      "YAP1-208 exon 3 -> NUTM1-203 exon 6\n",
      "YAP1-208 exon 3 -> NUTM1-204 exon 3\n",
      "YAP1-208 exon 3 -> NUTM1-204 exon 6\n",
      "YAP1-208 exon 3 -> NUTM1-202 exon 2\n",
      "YAP1-208 exon 3 -> NUTM1-202 exon 5\n",
      "YAP1-208 exon 3 -> NUTM1-201 exon 2\n",
      "YAP1-208 exon 3 -> NUTM1-201 exon 5\n",
      "YAP1-203 exon 3 -> NUTM1-203 exon 3\n",
      "YAP1-203 exon 3 -> NUTM1-203 exon 6\n",
      "YAP1-203 exon 3 -> NUTM1-204 exon 3\n",
      "YAP1-203 exon 3 -> NUTM1-204 exon 6\n",
      "YAP1-203 exon 3 -> NUTM1-202 exon 2\n",
      "YAP1-203 exon 3 -> NUTM1-202 exon 5\n",
      "YAP1-203 exon 3 -> NUTM1-201 exon 2\n",
      "YAP1-203 exon 3 -> NUTM1-201 exon 5\n",
      "NSD3-202 exon 7 -> NUTM1-203 exon 3\n",
      "NSD3-202 exon 7 -> NUTM1-203 exon 6\n",
      "NSD3-202 exon 7 -> NUTM1-204 exon 3\n",
      "NSD3-202 exon 7 -> NUTM1-204 exon 6\n",
      "NSD3-202 exon 7 -> NUTM1-202 exon 2\n",
      "NSD3-202 exon 7 -> NUTM1-202 exon 5\n",
      "NSD3-202 exon 7 -> NUTM1-201 exon 2\n",
      "NSD3-202 exon 7 -> NUTM1-201 exon 5\n",
      "NSD3-203 exon 7 -> NUTM1-203 exon 3\n",
      "NSD3-203 exon 7 -> NUTM1-203 exon 6\n",
      "NSD3-203 exon 7 -> NUTM1-204 exon 3\n",
      "NSD3-203 exon 7 -> NUTM1-204 exon 6\n",
      "NSD3-203 exon 7 -> NUTM1-202 exon 2\n",
      "NSD3-203 exon 7 -> NUTM1-202 exon 5\n",
      "NSD3-203 exon 7 -> NUTM1-201 exon 2\n",
      "NSD3-203 exon 7 -> NUTM1-201 exon 5\n",
      "NSD3-206 exon 7 -> NUTM1-203 exon 3\n",
      "NSD3-206 exon 7 -> NUTM1-203 exon 6\n",
      "NSD3-206 exon 7 -> NUTM1-204 exon 3\n",
      "NSD3-206 exon 7 -> NUTM1-204 exon 6\n",
      "NSD3-206 exon 7 -> NUTM1-202 exon 2\n",
      "NSD3-206 exon 7 -> NUTM1-202 exon 5\n",
      "NSD3-206 exon 7 -> NUTM1-201 exon 2\n",
      "NSD3-206 exon 7 -> NUTM1-201 exon 5\n",
      "NSD3-201 exon 7 -> NUTM1-203 exon 3\n",
      "NSD3-201 exon 7 -> NUTM1-203 exon 6\n",
      "NSD3-201 exon 7 -> NUTM1-204 exon 3\n",
      "NSD3-201 exon 7 -> NUTM1-204 exon 6\n",
      "NSD3-201 exon 7 -> NUTM1-202 exon 2\n",
      "NSD3-201 exon 7 -> NUTM1-202 exon 5\n",
      "NSD3-201 exon 7 -> NUTM1-201 exon 2\n",
      "NSD3-201 exon 7 -> NUTM1-201 exon 5\n"
     ]
    }
   ],
   "source": [
    "valid_pairs = []\n",
    "\n",
    "for five_prime_name, five_prime_exon_numbers in list(five_prime_genes.items()):\n",
    "    for five_prime_exon_number in five_prime_exon_numbers:\n",
    "        for five_prime_transcript in name_to_transcripts[five_prime_name]:\n",
    "            five_prime_key = (five_prime_transcript.name, five_prime_exon_number)\n",
    "            if five_prime_key in name_and_exon_end_phase:\n",
    "                five_prime_phase = name_and_exon_end_phase[five_prime_key]\n",
    "            else:\n",
    "                print(\"Skipping %s\" % (five_prime_key,))\n",
    "                continue\n",
    "            for three_prime_name, three_prime_exon_numbers in [(\"NUTM1\", NUTM1_start_exons)]:\n",
    "                for three_prime_transcript in name_to_transcripts[three_prime_name]:\n",
    "                    for three_prime_exon_number in three_prime_exon_numbers:\n",
    "                        three_prime_key = (three_prime_transcript.name, three_prime_exon_number)\n",
    "                        if three_prime_key in name_and_exon_start_phase:\n",
    "                            three_prime_phase = name_and_exon_start_phase[three_prime_key]\n",
    "                        else:\n",
    "                            print(\"Skipping %s\" % (three_prime_key,))\n",
    "                        if five_prime_phase == three_prime_phase:\n",
    "                            print(\"%s exon %d -> %s exon %d\" % (\n",
    "                                five_prime_transcript.name, five_prime_exon_number, \n",
    "                                three_prime_transcript.name, three_prime_exon_number))\n",
    "                            valid_pairs.append((\n",
    "                                (five_prime_transcript.name, five_prime_exon_number),\n",
    "                                (three_prime_transcript.name, three_prime_exon_number)\n",
    "                            ))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 65,
   "id": "bc5169e3",
   "metadata": {},
   "outputs": [],
   "source": [
    "def translate(seq):\n",
    "      \n",
    "    table = {\n",
    "        'ATA':'I', 'ATC':'I', 'ATT':'I', 'ATG':'M',\n",
    "        'ACA':'T', 'ACC':'T', 'ACG':'T', 'ACT':'T',\n",
    "        'AAC':'N', 'AAT':'N', 'AAA':'K', 'AAG':'K',\n",
    "        'AGC':'S', 'AGT':'S', 'AGA':'R', 'AGG':'R',                \n",
    "        'CTA':'L', 'CTC':'L', 'CTG':'L', 'CTT':'L',\n",
    "        'CCA':'P', 'CCC':'P', 'CCG':'P', 'CCT':'P',\n",
    "        'CAC':'H', 'CAT':'H', 'CAA':'Q', 'CAG':'Q',\n",
    "        'CGA':'R', 'CGC':'R', 'CGG':'R', 'CGT':'R',\n",
    "        'GTA':'V', 'GTC':'V', 'GTG':'V', 'GTT':'V',\n",
    "        'GCA':'A', 'GCC':'A', 'GCG':'A', 'GCT':'A',\n",
    "        'GAC':'D', 'GAT':'D', 'GAA':'E', 'GAG':'E',\n",
    "        'GGA':'G', 'GGC':'G', 'GGG':'G', 'GGT':'G',\n",
    "        'TCA':'S', 'TCC':'S', 'TCG':'S', 'TCT':'S',\n",
    "        'TTC':'F', 'TTT':'F', 'TTA':'L', 'TTG':'L',\n",
    "        'TAC':'Y', 'TAT':'Y', 'TAA':'_', 'TAG':'_',\n",
    "        'TGC':'C', 'TGT':'C', 'TGA':'_', 'TGG':'W',\n",
    "    }\n",
    "    protein = \"\"\n",
    "    if len(seq)%3 == 0:\n",
    "        for i in range(0, len(seq), 3):\n",
    "            codon = seq[i:i + 3]\n",
    "            protein+= table[codon]\n",
    "    return protein"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 72,
   "id": "9f808abb",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Truncating MGA-207 CDS (length 8571, stop at 8764) to exon 22 (length 7294)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating MGA-207 CDS (length 8571, stop at 8764) to exon 22 (length 7294)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating MGA-207 CDS (length 8571, stop at 8764) to exon 22 (length 7294)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating MGA-207 CDS (length 8571, stop at 8764) to exon 22 (length 7294)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating MGA-207 CDS (length 8571, stop at 8764) to exon 22 (length 7294)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating MGA-207 CDS (length 8571, stop at 8764) to exon 22 (length 7294)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating MGA-207 CDS (length 8571, stop at 8764) to exon 22 (length 7294)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating MGA-207 CDS (length 8571, stop at 8764) to exon 22 (length 7294)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating MGA-201 CDS (length 9198, stop at 9383) to exon 22 (length 7744)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating MGA-201 CDS (length 9198, stop at 9383) to exon 22 (length 7744)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating MGA-201 CDS (length 9198, stop at 9383) to exon 22 (length 7744)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating MGA-201 CDS (length 9198, stop at 9383) to exon 22 (length 7744)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating MGA-201 CDS (length 9198, stop at 9383) to exon 22 (length 7744)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating MGA-201 CDS (length 9198, stop at 9383) to exon 22 (length 7744)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating MGA-201 CDS (length 9198, stop at 9383) to exon 22 (length 7744)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating MGA-201 CDS (length 9198, stop at 9383) to exon 22 (length 7744)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating MGA-214 CDS (length 9345, stop at 9530) to exon 22 (length 7891)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating MGA-214 CDS (length 9345, stop at 9530) to exon 22 (length 7891)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating MGA-214 CDS (length 9345, stop at 9530) to exon 22 (length 7891)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating MGA-214 CDS (length 9345, stop at 9530) to exon 22 (length 7891)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating MGA-214 CDS (length 9345, stop at 9530) to exon 22 (length 7891)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating MGA-214 CDS (length 9345, stop at 9530) to exon 22 (length 7891)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating MGA-214 CDS (length 9345, stop at 9530) to exon 22 (length 7891)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating MGA-214 CDS (length 9345, stop at 9530) to exon 22 (length 7891)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 10 (length 2047)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 10 (length 2047)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 10 (length 2047)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 10 (length 2047)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 10 (length 2047)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 10 (length 2047)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 10 (length 2047)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 10 (length 2047)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 10 (length 2047)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 10 (length 2047)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 10 (length 2047)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 10 (length 2047)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 10 (length 2047)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 10 (length 2047)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 10 (length 2047)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 10 (length 2047)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 10 (length 2047)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 10 (length 2047)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 10 (length 2047)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 10 (length 2047)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 10 (length 2047)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 10 (length 2047)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 10 (length 2047)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 10 (length 2047)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 10 (length 2047)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 10 (length 2047)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 10 (length 2047)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 10 (length 2047)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 10 (length 2047)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 10 (length 2047)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 10 (length 2047)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 10 (length 2047)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 11 (length 2158)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 11 (length 2158)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 11 (length 2158)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 11 (length 2158)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 11 (length 2158)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 11 (length 2158)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 11 (length 2158)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 11 (length 2158)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 11 (length 2158)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 11 (length 2158)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 11 (length 2158)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 11 (length 2158)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 11 (length 2158)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 11 (length 2158)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 11 (length 2158)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 11 (length 2158)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 11 (length 2158)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 11 (length 2158)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 11 (length 2158)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 11 (length 2158)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 11 (length 2158)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 11 (length 2158)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 11 (length 2158)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-203 CDS (length 2169, stop at 2388) to exon 11 (length 2158)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 11 (length 2158)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 11 (length 2158)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 11 (length 2158)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 11 (length 2158)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 11 (length 2158)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 11 (length 2158)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 11 (length 2158)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-202 CDS (length 2385, stop at 2672) to exon 11 (length 2158)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 12 (length 2211)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 2 (length 3477)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 12 (length 2211)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 2 (length 3399)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 12 (length 2211)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 6 (length 2121)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 12 (length 2211)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 6 (length 2121)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 12 (length 2211)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 2 (length 3477)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 12 (length 2211)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 2 (length 3399)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 12 (length 2211)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 6 (length 2121)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 12 (length 2211)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 6 (length 2121)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 13 (length 2581)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 13 (length 2581)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 13 (length 2581)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 13 (length 2581)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 13 (length 2581)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 13 (length 2581)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 13 (length 2581)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 13 (length 2581)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 13 (length 2581)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 13 (length 2581)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 13 (length 2581)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 13 (length 2581)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 13 (length 2581)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 13 (length 2581)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 13 (length 2581)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 13 (length 2581)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 14 (length 3169)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 14 (length 3169)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 14 (length 3169)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 14 (length 3169)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 14 (length 3169)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 14 (length 3169)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 14 (length 3169)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 14 (length 3169)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 14 (length 3169)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 14 (length 3169)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 14 (length 3169)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 14 (length 3169)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 14 (length 3169)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 14 (length 3169)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 14 (length 3169)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 14 (length 3169)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 15 (length 3282)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 2 (length 3477)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 15 (length 3282)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 2 (length 3399)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 15 (length 3282)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 6 (length 2121)\n",
      "Truncating BRD4-201 CDS (length 4089, stop at 4308) to exon 15 (length 3282)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 6 (length 2121)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 15 (length 3282)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 2 (length 3477)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 15 (length 3282)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 2 (length 3399)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 15 (length 3282)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 6 (length 2121)\n",
      "Truncating BRD4-213 CDS (length 4089, stop at 4370) to exon 15 (length 3282)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 6 (length 2121)\n",
      "Truncating BRD3-201 CDS (length 2181, stop at 2373) to exon 9 (length 1643)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 4 (length 2674)\n",
      "Truncating BRD3-201 CDS (length 2181, stop at 2373) to exon 9 (length 1643)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 5 (length 2545)\n",
      "Truncating BRD3-201 CDS (length 2181, stop at 2373) to exon 9 (length 1643)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 4 (length 2674)\n",
      "Truncating BRD3-201 CDS (length 2181, stop at 2373) to exon 9 (length 1643)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 5 (length 2545)\n",
      "Truncating BRD3-201 CDS (length 2181, stop at 2373) to exon 9 (length 1643)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 3 (length 2674)\n",
      "Truncating BRD3-201 CDS (length 2181, stop at 2373) to exon 9 (length 1643)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 4 (length 2545)\n",
      "Truncating BRD3-201 CDS (length 2181, stop at 2373) to exon 9 (length 1643)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 3 (length 2674)\n",
      "Truncating BRD3-201 CDS (length 2181, stop at 2373) to exon 9 (length 1643)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 4 (length 2545)\n",
      "Truncating BRD3-202 CDS (length 1671, stop at 1990) to exon 9 (length 1643)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 4 (length 2674)\n",
      "Truncating BRD3-202 CDS (length 1671, stop at 1990) to exon 9 (length 1643)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 5 (length 2545)\n",
      "Truncating BRD3-202 CDS (length 1671, stop at 1990) to exon 9 (length 1643)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 4 (length 2674)\n",
      "Truncating BRD3-202 CDS (length 1671, stop at 1990) to exon 9 (length 1643)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 5 (length 2545)\n",
      "Truncating BRD3-202 CDS (length 1671, stop at 1990) to exon 9 (length 1643)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 3 (length 2674)\n",
      "Truncating BRD3-202 CDS (length 1671, stop at 1990) to exon 9 (length 1643)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 4 (length 2545)\n",
      "Truncating BRD3-202 CDS (length 1671, stop at 1990) to exon 9 (length 1643)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 3 (length 2674)\n",
      "Truncating BRD3-202 CDS (length 1671, stop at 1990) to exon 9 (length 1643)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 4 (length 2545)\n",
      "Truncating MXD4-201 CDS (length 630, stop at 756) to exon 5 (length 472)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating MXD4-201 CDS (length 630, stop at 756) to exon 5 (length 472)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating MXD4-201 CDS (length 630, stop at 756) to exon 5 (length 472)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating MXD4-201 CDS (length 630, stop at 756) to exon 5 (length 472)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating MXD4-201 CDS (length 630, stop at 756) to exon 5 (length 472)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating MXD4-201 CDS (length 630, stop at 756) to exon 5 (length 472)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating MXD4-201 CDS (length 630, stop at 756) to exon 5 (length 472)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating MXD4-201 CDS (length 630, stop at 756) to exon 5 (length 472)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 16 (length 6516)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 2 (length 3477)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 16 (length 6516)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 2 (length 3399)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 16 (length 6516)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 6 (length 2121)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 16 (length 6516)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 6 (length 2121)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 16 (length 6522)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 2 (length 3477)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 16 (length 6522)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 2 (length 3399)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 16 (length 6522)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 6 (length 2121)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 16 (length 6522)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 6 (length 2121)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 16 (length 4034)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 4 (length 2674)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 16 (length 4034)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 5 (length 2545)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 16 (length 4034)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 4 (length 2674)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 16 (length 4034)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 5 (length 2545)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 16 (length 4034)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 3 (length 2674)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 16 (length 4034)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 4 (length 2545)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 16 (length 4034)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 3 (length 2674)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 16 (length 4034)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 4 (length 2545)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 16 (length 4040)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 4 (length 2674)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 16 (length 4040)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 5 (length 2545)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 16 (length 4040)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 4 (length 2674)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 16 (length 4040)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 5 (length 2545)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 16 (length 4040)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 3 (length 2674)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 16 (length 4040)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 4 (length 2545)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 16 (length 4040)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 3 (length 2674)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 16 (length 4040)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 4 (length 2545)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 17 (length 6761)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 4 (length 2674)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 17 (length 6761)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 5 (length 2545)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 17 (length 6761)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 4 (length 2674)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 17 (length 6761)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 5 (length 2545)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 17 (length 6761)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 3 (length 2674)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 17 (length 6761)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 4 (length 2545)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 17 (length 6761)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 3 (length 2674)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 17 (length 6761)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 4 (length 2545)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 17 (length 6767)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 4 (length 2674)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 17 (length 6767)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 5 (length 2545)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 17 (length 6767)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 4 (length 2674)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 17 (length 6767)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 5 (length 2545)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 17 (length 6767)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 3 (length 2674)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 17 (length 6767)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 4 (length 2545)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 17 (length 6767)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 3 (length 2674)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 17 (length 6767)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 4 (length 2545)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 17 (length 4189)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 17 (length 4189)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 17 (length 4189)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 17 (length 4189)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 17 (length 4189)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 17 (length 4189)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 17 (length 4189)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 17 (length 4189)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 17 (length 4195)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 17 (length 4195)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 17 (length 4195)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 17 (length 4195)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 17 (length 4195)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 17 (length 4195)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 17 (length 4195)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 17 (length 4195)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 18 (length 6913)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 18 (length 6913)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 18 (length 6913)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 18 (length 6913)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 18 (length 6913)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 18 (length 6913)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 18 (length 6913)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 18 (length 6913)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 18 (length 6922)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 18 (length 6922)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 18 (length 6922)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 18 (length 6922)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 18 (length 6922)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 18 (length 6922)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 18 (length 6922)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 18 (length 6922)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 18 (length 4321)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 18 (length 4321)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 18 (length 4321)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 18 (length 4321)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 18 (length 4321)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 18 (length 4321)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 18 (length 4321)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 18 (length 4321)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 18 (length 4327)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 18 (length 4327)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 18 (length 4327)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 18 (length 4327)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 18 (length 4327)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 18 (length 4327)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 18 (length 4327)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 18 (length 4327)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 19 (length 7045)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 19 (length 7045)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 19 (length 7045)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 19 (length 7045)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 19 (length 7045)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 19 (length 7045)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 19 (length 7045)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 19 (length 7045)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 19 (length 7054)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 19 (length 7054)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 19 (length 7054)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 19 (length 7054)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 19 (length 7054)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 19 (length 7054)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 19 (length 7054)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 19 (length 7054)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 19 (length 4453)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 19 (length 4453)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 19 (length 4453)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 19 (length 4453)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 19 (length 4453)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 19 (length 4453)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 19 (length 4453)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-201 CDS (length 4821, stop at 5503) to exon 19 (length 4453)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 19 (length 4459)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 19 (length 4459)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 19 (length 4459)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 19 (length 4459)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 19 (length 4459)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 19 (length 4459)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 19 (length 4459)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-206 CDS (length 4827, stop at 4864) to exon 19 (length 4459)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 20 (length 7177)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 20 (length 7177)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 20 (length 7177)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 20 (length 7177)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 20 (length 7177)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 20 (length 7177)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 20 (length 7177)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-203 CDS (length 7545, stop at 7610) to exon 20 (length 7177)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 20 (length 7186)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 20 (length 7186)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 20 (length 7186)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 20 (length 7186)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 20 (length 7186)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 20 (length 7186)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 20 (length 7186)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating CIC-209 CDS (length 7554, stop at 7691) to exon 20 (length 7186)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-202 CDS (length 3453, stop at 3972) to exon 2 (length 271)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-202 CDS (length 3453, stop at 3972) to exon 2 (length 271)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-202 CDS (length 3453, stop at 3972) to exon 2 (length 271)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-202 CDS (length 3453, stop at 3972) to exon 2 (length 271)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-202 CDS (length 3453, stop at 3972) to exon 2 (length 271)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-202 CDS (length 3453, stop at 3972) to exon 2 (length 271)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-202 CDS (length 3453, stop at 3972) to exon 2 (length 271)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-202 CDS (length 3453, stop at 3972) to exon 2 (length 271)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-201 CDS (length 3300, stop at 3398) to exon 2 (length 163)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-201 CDS (length 3300, stop at 3398) to exon 2 (length 163)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-201 CDS (length 3300, stop at 3398) to exon 2 (length 163)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-201 CDS (length 3300, stop at 3398) to exon 2 (length 163)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-201 CDS (length 3300, stop at 3398) to exon 2 (length 163)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-201 CDS (length 3300, stop at 3398) to exon 2 (length 163)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-201 CDS (length 3300, stop at 3398) to exon 2 (length 163)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-201 CDS (length 3300, stop at 3398) to exon 2 (length 163)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-221 CDS (length 3429, stop at 4208) to exon 2 (length 316)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-221 CDS (length 3429, stop at 4208) to exon 2 (length 316)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-221 CDS (length 3429, stop at 4208) to exon 2 (length 316)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-221 CDS (length 3429, stop at 4208) to exon 2 (length 316)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-221 CDS (length 3429, stop at 4208) to exon 2 (length 316)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-221 CDS (length 3429, stop at 4208) to exon 2 (length 316)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-221 CDS (length 3429, stop at 4208) to exon 2 (length 316)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-221 CDS (length 3429, stop at 4208) to exon 2 (length 316)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-204 CDS (length 3408, stop at 3569) to exon 2 (length 366)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 2 (length 3477)\n",
      "Truncating SLC12A6-204 CDS (length 3408, stop at 3569) to exon 2 (length 366)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 2 (length 3399)\n",
      "Truncating SLC12A6-204 CDS (length 3408, stop at 3569) to exon 2 (length 366)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 6 (length 2121)\n",
      "Truncating SLC12A6-204 CDS (length 3408, stop at 3569) to exon 2 (length 366)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 6 (length 2121)\n",
      "Truncating SLC12A6-217 CDS (length 3453, stop at 3614) to exon 2 (length 316)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-217 CDS (length 3453, stop at 3614) to exon 2 (length 316)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-217 CDS (length 3453, stop at 3614) to exon 2 (length 316)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-217 CDS (length 3453, stop at 3614) to exon 2 (length 316)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-217 CDS (length 3453, stop at 3614) to exon 2 (length 316)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-217 CDS (length 3453, stop at 3614) to exon 2 (length 316)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-217 CDS (length 3453, stop at 3614) to exon 2 (length 316)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-217 CDS (length 3453, stop at 3614) to exon 2 (length 316)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-205 CDS (length 3276, stop at 3800) to exon 2 (length 94)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-205 CDS (length 3276, stop at 3800) to exon 2 (length 94)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-205 CDS (length 3276, stop at 3800) to exon 2 (length 94)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-205 CDS (length 3276, stop at 3800) to exon 2 (length 94)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-205 CDS (length 3276, stop at 3800) to exon 2 (length 94)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-205 CDS (length 3276, stop at 3800) to exon 2 (length 94)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-205 CDS (length 3276, stop at 3800) to exon 2 (length 94)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-205 CDS (length 3276, stop at 3800) to exon 2 (length 94)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-203 CDS (length 3276, stop at 3471) to exon 2 (length 94)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-203 CDS (length 3276, stop at 3471) to exon 2 (length 94)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-203 CDS (length 3276, stop at 3471) to exon 2 (length 94)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-203 CDS (length 3276, stop at 3471) to exon 2 (length 94)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-203 CDS (length 3276, stop at 3471) to exon 2 (length 94)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-203 CDS (length 3276, stop at 3471) to exon 2 (length 94)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-203 CDS (length 3276, stop at 3471) to exon 2 (length 94)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-203 CDS (length 3276, stop at 3471) to exon 2 (length 94)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-216 CDS (length 2889, stop at 3122) to exon 2 (length 2797)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-216 CDS (length 2889, stop at 3122) to exon 2 (length 2797)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-216 CDS (length 2889, stop at 3122) to exon 2 (length 2797)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-216 CDS (length 2889, stop at 3122) to exon 2 (length 2797)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-216 CDS (length 2889, stop at 3122) to exon 2 (length 2797)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-216 CDS (length 2889, stop at 3122) to exon 2 (length 2797)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-216 CDS (length 2889, stop at 3122) to exon 2 (length 2797)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-216 CDS (length 2889, stop at 3122) to exon 2 (length 2797)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-207 CDS (length 3453, stop at 3553) to exon 2 (length 271)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-207 CDS (length 3453, stop at 3553) to exon 2 (length 271)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-207 CDS (length 3453, stop at 3553) to exon 2 (length 271)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-207 CDS (length 3453, stop at 3553) to exon 2 (length 271)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-207 CDS (length 3453, stop at 3553) to exon 2 (length 271)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-207 CDS (length 3453, stop at 3553) to exon 2 (length 271)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-207 CDS (length 3453, stop at 3553) to exon 2 (length 271)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-207 CDS (length 3453, stop at 3553) to exon 2 (length 271)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-206 CDS (length 3426, stop at 3863) to exon 2 (length 244)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-206 CDS (length 3426, stop at 3863) to exon 2 (length 244)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-206 CDS (length 3426, stop at 3863) to exon 2 (length 244)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating SLC12A6-206 CDS (length 3426, stop at 3863) to exon 2 (length 244)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating SLC12A6-206 CDS (length 3426, stop at 3863) to exon 2 (length 244)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-206 CDS (length 3426, stop at 3863) to exon 2 (length 244)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating SLC12A6-206 CDS (length 3426, stop at 3863) to exon 2 (length 244)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating SLC12A6-206 CDS (length 3426, stop at 3863) to exon 2 (length 244)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating YAP1-201 CDS (length 1515, stop at 1914) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating YAP1-201 CDS (length 1515, stop at 1914) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating YAP1-201 CDS (length 1515, stop at 1914) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating YAP1-201 CDS (length 1515, stop at 1914) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating YAP1-201 CDS (length 1515, stop at 1914) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating YAP1-201 CDS (length 1515, stop at 1914) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating YAP1-201 CDS (length 1515, stop at 1914) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating YAP1-201 CDS (length 1515, stop at 1914) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating YAP1-204 CDS (length 1353, stop at 1738) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating YAP1-204 CDS (length 1353, stop at 1738) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating YAP1-204 CDS (length 1353, stop at 1738) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating YAP1-204 CDS (length 1353, stop at 1738) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating YAP1-204 CDS (length 1353, stop at 1738) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating YAP1-204 CDS (length 1353, stop at 1738) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating YAP1-204 CDS (length 1353, stop at 1738) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating YAP1-204 CDS (length 1353, stop at 1738) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating YAP1-209 CDS (length 1479, stop at 1864) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating YAP1-209 CDS (length 1479, stop at 1864) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating YAP1-209 CDS (length 1479, stop at 1864) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating YAP1-209 CDS (length 1479, stop at 1864) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating YAP1-209 CDS (length 1479, stop at 1864) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating YAP1-209 CDS (length 1479, stop at 1864) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating YAP1-209 CDS (length 1479, stop at 1864) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating YAP1-209 CDS (length 1479, stop at 1864) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating YAP1-202 CDS (length 1413, stop at 1798) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating YAP1-202 CDS (length 1413, stop at 1798) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating YAP1-202 CDS (length 1413, stop at 1798) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating YAP1-202 CDS (length 1413, stop at 1798) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating YAP1-202 CDS (length 1413, stop at 1798) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating YAP1-202 CDS (length 1413, stop at 1798) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating YAP1-202 CDS (length 1413, stop at 1798) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating YAP1-202 CDS (length 1413, stop at 1798) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating YAP1-210 CDS (length 1527, stop at 1912) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating YAP1-210 CDS (length 1527, stop at 1912) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating YAP1-210 CDS (length 1527, stop at 1912) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating YAP1-210 CDS (length 1527, stop at 1912) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating YAP1-210 CDS (length 1527, stop at 1912) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating YAP1-210 CDS (length 1527, stop at 1912) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating YAP1-210 CDS (length 1527, stop at 1912) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating YAP1-210 CDS (length 1527, stop at 1912) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating YAP1-211 CDS (length 1365, stop at 1362) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating YAP1-211 CDS (length 1365, stop at 1362) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating YAP1-211 CDS (length 1365, stop at 1362) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating YAP1-211 CDS (length 1365, stop at 1362) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating YAP1-211 CDS (length 1365, stop at 1362) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating YAP1-211 CDS (length 1365, stop at 1362) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating YAP1-211 CDS (length 1365, stop at 1362) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating YAP1-211 CDS (length 1365, stop at 1362) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating YAP1-208 CDS (length 1467, stop at 1464) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating YAP1-208 CDS (length 1467, stop at 1464) to exon 3 (length 688)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating YAP1-208 CDS (length 1467, stop at 1464) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating YAP1-208 CDS (length 1467, stop at 1464) to exon 3 (length 688)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating YAP1-208 CDS (length 1467, stop at 1464) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating YAP1-208 CDS (length 1467, stop at 1464) to exon 3 (length 688)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating YAP1-208 CDS (length 1467, stop at 1464) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating YAP1-208 CDS (length 1467, stop at 1464) to exon 3 (length 688)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating YAP1-203 CDS (length 981, stop at 1423) to exon 3 (length 154)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating YAP1-203 CDS (length 981, stop at 1423) to exon 3 (length 154)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating YAP1-203 CDS (length 981, stop at 1423) to exon 3 (length 154)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating YAP1-203 CDS (length 981, stop at 1423) to exon 3 (length 154)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating YAP1-203 CDS (length 981, stop at 1423) to exon 3 (length 154)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating YAP1-203 CDS (length 981, stop at 1423) to exon 3 (length 154)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating YAP1-203 CDS (length 981, stop at 1423) to exon 3 (length 154)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating YAP1-203 CDS (length 981, stop at 1423) to exon 3 (length 154)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating NSD3-202 CDS (length 4314, stop at 4828) to exon 7 (length 1708)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating NSD3-202 CDS (length 4314, stop at 4828) to exon 7 (length 1708)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating NSD3-202 CDS (length 4314, stop at 4828) to exon 7 (length 1708)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating NSD3-202 CDS (length 4314, stop at 4828) to exon 7 (length 1708)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating NSD3-202 CDS (length 4314, stop at 4828) to exon 7 (length 1708)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating NSD3-202 CDS (length 4314, stop at 4828) to exon 7 (length 1708)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating NSD3-202 CDS (length 4314, stop at 4828) to exon 7 (length 1708)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating NSD3-202 CDS (length 4314, stop at 4828) to exon 7 (length 1708)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating NSD3-203 CDS (length 4167, stop at 4655) to exon 7 (length 1708)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating NSD3-203 CDS (length 4167, stop at 4655) to exon 7 (length 1708)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating NSD3-203 CDS (length 4167, stop at 4655) to exon 7 (length 1708)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating NSD3-203 CDS (length 4167, stop at 4655) to exon 7 (length 1708)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating NSD3-203 CDS (length 4167, stop at 4655) to exon 7 (length 1708)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating NSD3-203 CDS (length 4167, stop at 4655) to exon 7 (length 1708)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating NSD3-203 CDS (length 4167, stop at 4655) to exon 7 (length 1708)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating NSD3-203 CDS (length 4167, stop at 4655) to exon 7 (length 1708)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating NSD3-206 CDS (length 4281, stop at 4370) to exon 7 (length 1708)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating NSD3-206 CDS (length 4281, stop at 4370) to exon 7 (length 1708)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating NSD3-206 CDS (length 4281, stop at 4370) to exon 7 (length 1708)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating NSD3-206 CDS (length 4281, stop at 4370) to exon 7 (length 1708)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating NSD3-206 CDS (length 4281, stop at 4370) to exon 7 (length 1708)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating NSD3-206 CDS (length 4281, stop at 4370) to exon 7 (length 1708)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating NSD3-206 CDS (length 4281, stop at 4370) to exon 7 (length 1708)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating NSD3-206 CDS (length 4281, stop at 4370) to exon 7 (length 1708)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n",
      "Truncating NSD3-201 CDS (length 1938, stop at 2453) to exon 7 (length 1708)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 3 (length 3383)\n",
      "Truncating NSD3-201 CDS (length 1938, stop at 2453) to exon 7 (length 1708)\n",
      "Starting NUTM1-203 CDS (length 3483) at exon 6 (length 2408)\n",
      "Truncating NSD3-201 CDS (length 1938, stop at 2453) to exon 7 (length 1708)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 3 (length 3383)\n",
      "Truncating NSD3-201 CDS (length 1938, stop at 2453) to exon 7 (length 1708)\n",
      "Starting NUTM1-204 CDS (length 3399) at exon 6 (length 2408)\n",
      "Truncating NSD3-201 CDS (length 1938, stop at 2453) to exon 7 (length 1708)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 2 (length 3383)\n",
      "Truncating NSD3-201 CDS (length 1938, stop at 2453) to exon 7 (length 1708)\n",
      "Starting NUTM1-202 CDS (length 3453) at exon 5 (length 2408)\n",
      "Truncating NSD3-201 CDS (length 1938, stop at 2453) to exon 7 (length 1708)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 2 (length 3383)\n",
      "Truncating NSD3-201 CDS (length 1938, stop at 2453) to exon 7 (length 1708)\n",
      "Starting NUTM1-201 CDS (length 3399) at exon 5 (length 2408)\n"
     ]
    }
   ],
   "source": [
    "fused_coding_sequences = {}\n",
    "fused_proteins = {}\n",
    "breakpoint_offset = {}\n",
    "for (k1, k2) in valid_pairs:\n",
    "    (p5_name, p5_exon), (p3_name, p3_exon) = k1, k2\n",
    "    p5_t = ensembl_grch38.transcripts_by_name(p5_name)[0]\n",
    "    p5_full_cds = p5_t.coding_sequence\n",
    "    p5_cds_length = name_and_exon_to_cds_length[(p5_name, p5_exon)]\n",
    "    p5_stop_offset = min(p5_t.stop_codon_spliced_offsets)\n",
    "    \n",
    "    print(\"Truncating %s CDS (length %d, stop at %d) to exon %d (length %d)\" % (\n",
    "        p5_name,\n",
    "        len(p5_full_cds),\n",
    "        p5_stop_offset,\n",
    "        p5_exon,\n",
    "        p5_cds_length,\n",
    "    ))\n",
    "    if (p5_exon >= len(p5_t.exons)) or (p5_cds_length > p5_stop_offset):\n",
    "        print(\"!!! Skipping %s\" % (p5_name))\n",
    "        continue\n",
    "    \n",
    "    p5_cds = p5_full_cds[:p5_cds_length]\n",
    "    p3_t = ensembl_grch38.transcripts_by_name(p3_name)[0]\n",
    "    p3_full_cds = p3_t.coding_sequence\n",
    "    p3_cds_length_before = name_and_exon_to_cds_length[(p3_name, p3_exon - 1)]\n",
    "    p3_cds = p3_full_cds[p3_cds_length_before:]\n",
    "    print(\"Starting %s CDS (length %d) at exon %d (length %d)\" % (\n",
    "        p3_name,\n",
    "        len(p3_full_cds),\n",
    "        p3_exon,\n",
    "        len(p3_cds)\n",
    "    ))\n",
    "\n",
    "    combined_cds = p5_cds + p3_cds\n",
    "    assert len(combined_cds) % 3 == 0\n",
    "    fused_coding_sequences[(k1, k2)] = combined_cds\n",
    "    breakpoint_offset[(k1, k2)] = len(p5_cds)\n",
    "    fused_proteins[(k1, k2)] = translate(combined_cds)\n",
    "    \n",
    "    "
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 73,
   "id": "c9fde241",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>upstream_gene</th>\n",
       "      <th>upstream_transcript</th>\n",
       "      <th>upstream_last_exon</th>\n",
       "      <th>downstream_gene</th>\n",
       "      <th>downstream_transcript</th>\n",
       "      <th>downstream_first_exon</th>\n",
       "      <th>upstream_cds</th>\n",
       "      <th>downstream_cds</th>\n",
       "      <th>junction_inside_codon</th>\n",
       "      <th>protein_upstream</th>\n",
       "      <th>protein_junction</th>\n",
       "      <th>protein_downstream</th>\n",
       "      <th>junction_same_upstream</th>\n",
       "      <th>junction_same_downstream</th>\n",
       "      <th>junction_same_in_both</th>\n",
       "      <th>junction_same_in_either</th>\n",
       "      <th>junction_mutant_residue</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>MGA</td>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>MGA</td>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>MGA</td>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-204</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>MGA</td>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-204</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>MGA</td>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-202</td>\n",
       "      <td>2</td>\n",
       "      <td>ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>463</th>\n",
       "      <td>NSD3</td>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-204</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>464</th>\n",
       "      <td>NSD3</td>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-202</td>\n",
       "      <td>2</td>\n",
       "      <td>ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>465</th>\n",
       "      <td>NSD3</td>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-202</td>\n",
       "      <td>5</td>\n",
       "      <td>ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>466</th>\n",
       "      <td>NSD3</td>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-201</td>\n",
       "      <td>2</td>\n",
       "      <td>ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>467</th>\n",
       "      <td>NSD3</td>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-201</td>\n",
       "      <td>5</td>\n",
       "      <td>ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>468 rows × 17 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "    upstream_gene upstream_transcript  upstream_last_exon downstream_gene  \\\n",
       "0             MGA             MGA-207                  22           NUTM1   \n",
       "1             MGA             MGA-207                  22           NUTM1   \n",
       "2             MGA             MGA-207                  22           NUTM1   \n",
       "3             MGA             MGA-207                  22           NUTM1   \n",
       "4             MGA             MGA-207                  22           NUTM1   \n",
       "..            ...                 ...                 ...             ...   \n",
       "463          NSD3            NSD3-201                   7           NUTM1   \n",
       "464          NSD3            NSD3-201                   7           NUTM1   \n",
       "465          NSD3            NSD3-201                   7           NUTM1   \n",
       "466          NSD3            NSD3-201                   7           NUTM1   \n",
       "467          NSD3            NSD3-201                   7           NUTM1   \n",
       "\n",
       "    downstream_transcript  downstream_first_exon  \\\n",
       "0               NUTM1-203                      3   \n",
       "1               NUTM1-203                      6   \n",
       "2               NUTM1-204                      3   \n",
       "3               NUTM1-204                      6   \n",
       "4               NUTM1-202                      2   \n",
       "..                    ...                    ...   \n",
       "463             NUTM1-204                      6   \n",
       "464             NUTM1-202                      2   \n",
       "465             NUTM1-202                      5   \n",
       "466             NUTM1-201                      2   \n",
       "467             NUTM1-201                      5   \n",
       "\n",
       "                                          upstream_cds  \\\n",
       "0    ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...   \n",
       "1    ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...   \n",
       "2    ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...   \n",
       "3    ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...   \n",
       "4    ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...   \n",
       "..                                                 ...   \n",
       "463  ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...   \n",
       "464  ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...   \n",
       "465  ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...   \n",
       "466  ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...   \n",
       "467  ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...   \n",
       "\n",
       "                                        downstream_cds  junction_inside_codon  \\\n",
       "0    CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "1    TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "2    CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "3    TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "4    CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "..                                                 ...                    ...   \n",
       "463  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "464  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "465  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "466  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "467  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "\n",
       "                                      protein_upstream protein_junction  \\\n",
       "0    MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...                A   \n",
       "1    MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...                V   \n",
       "2    MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...                A   \n",
       "3    MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...                V   \n",
       "4    MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...                A   \n",
       "..                                                 ...              ...   \n",
       "463  MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...                V   \n",
       "464  MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...                A   \n",
       "465  MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...                V   \n",
       "466  MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...                A   \n",
       "467  MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...                V   \n",
       "\n",
       "                                    protein_downstream  \\\n",
       "0    SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...   \n",
       "1    YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...   \n",
       "2    SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...   \n",
       "3    YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...   \n",
       "4    SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...   \n",
       "..                                                 ...   \n",
       "463  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...   \n",
       "464  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...   \n",
       "465  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...   \n",
       "466  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...   \n",
       "467  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...   \n",
       "\n",
       "     junction_same_upstream  junction_same_downstream  junction_same_in_both  \\\n",
       "0                     False                      True                  False   \n",
       "1                     False                      True                  False   \n",
       "2                     False                      True                  False   \n",
       "3                     False                      True                  False   \n",
       "4                     False                      True                  False   \n",
       "..                      ...                       ...                    ...   \n",
       "463                   False                      True                  False   \n",
       "464                   False                      True                  False   \n",
       "465                   False                      True                  False   \n",
       "466                   False                      True                  False   \n",
       "467                   False                      True                  False   \n",
       "\n",
       "     junction_same_in_either  junction_mutant_residue  \n",
       "0                       True                    False  \n",
       "1                       True                    False  \n",
       "2                       True                    False  \n",
       "3                       True                    False  \n",
       "4                       True                    False  \n",
       "..                       ...                      ...  \n",
       "463                     True                    False  \n",
       "464                     True                    False  \n",
       "465                     True                    False  \n",
       "466                     True                    False  \n",
       "467                     True                    False  \n",
       "\n",
       "[468 rows x 17 columns]"
      ]
     },
     "execution_count": 73,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "import pandas as pd\n",
    "from collections import defaultdict\n",
    "columns = [\n",
    "    \"upstream_gene\",\n",
    "    \"upstream_transcript\",\n",
    "    \"upstream_last_exon\",\n",
    "    \"downstream_gene\",\n",
    "    \"downstream_transcript\",\n",
    "    \"downstream_first_exon\",\n",
    "    \"upstream_cds\",\n",
    "    \"downstream_cds\",\n",
    "    \"protein_upstream\",\n",
    "    \"protein_junction\",\n",
    "    \"protein_downstream\",\n",
    "    \"junction_creates_mutant_residue\",\n",
    "]\n",
    "data = defaultdict(list)\n",
    "for (k1, k2), cds in fused_coding_sequences.items():\n",
    "    (upstream_transcript_name, upstream_exon), (downstream_transcript_name, downstream_exon) = k1, k2\n",
    "    upstream_transcript = ensembl_grch38.transcripts_by_name(upstream_transcript_name)[0]\n",
    "    upstream_gene = upstream_transcript.gene_name\n",
    "    downstream_transcript = ensembl_grch38.transcripts_by_name(downstream_transcript_name)[0]\n",
    "    downstream_gene = downstream_transcript.gene_name\n",
    "\n",
    "    breakpoint = breakpoint_offset[(k1, k2)]\n",
    "    protein = fused_proteins[(k1, k2)]\n",
    "    data[\"upstream_gene\"].append(upstream_gene)\n",
    "    data[\"upstream_transcript\"].append(upstream_transcript.name)\n",
    "    data[\"upstream_last_exon\"].append(upstream_exon)\n",
    "    data[\"downstream_gene\"].append(downstream_gene)\n",
    "    data[\"downstream_transcript\"].append(downstream_transcript.name)\n",
    "    data[\"downstream_first_exon\"].append(downstream_exon)\n",
    "    data[\"upstream_cds\"].append(cds[:breakpoint])\n",
    "    data[\"downstream_cds\"].append(cds[breakpoint:])\n",
    "    if breakpoint % 3 == 0:\n",
    "        data[\"junction_inside_codon\"].append(False)\n",
    "        data[\"protein_upstream\"].append(protein[:breakpoint // 3])\n",
    "        data[\"protein_junction\"].append(\"\")\n",
    "        data[\"protein_downstream\"].append(protein[breakpoint//3:])\n",
    "        data[\"junction_same_upstream\"].append(True)\n",
    "        data[\"junction_same_downstream\"].append(True)\n",
    "        data[\"junction_same_in_both\"].append(True)\n",
    "        data[\"junction_same_in_either\"].append(True)\n",
    "        data[\"junction_mutant_residue\"].append(False)\n",
    " \n",
    "        \n",
    "    else:\n",
    "        data[\"junction_inside_codon\"].append(True)\n",
    "        data[\"protein_upstream\"].append(protein[:breakpoint // 3])\n",
    "        junction_aa = protein[breakpoint // 3]\n",
    "        data[\"protein_junction\"].append(junction_aa)\n",
    "        data[\"protein_downstream\"].append(protein[breakpoint // 3 + 1:])\n",
    "        upstream_protein_sequence = upstream_transcript.protein_sequence\n",
    "        downstream_protein_sequence = downstream_transcript.protein_sequence\n",
    "        p3_name, p3_exon = k2\n",
    "        cds_length_before_downstream_breakpoint = name_and_exon_to_cds_length[(p3_name, p3_exon - 1)]\n",
    "        same_upstream = (junction_aa == upstream_protein_sequence[breakpoint//3])\n",
    "        same_downstream = (junction_aa == downstream_protein_sequence[cds_length_before_downstream_breakpoint // 3])\n",
    "        data[\"junction_same_upstream\"].append(same_upstream)\n",
    "        data[\"junction_same_downstream\"].append(same_downstream)\n",
    "        data[\"junction_same_in_both\"].append(same_upstream and same_downstream)\n",
    "        data[\"junction_same_in_either\"].append(same_upstream or same_downstream)\n",
    "        data[\"junction_mutant_residue\"].append(not (same_upstream or same_downstream))\n",
    "        \n",
    "        \n",
    "    \n",
    "df = pd.DataFrame(data)\n",
    "\n",
    "df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 74,
   "id": "cf7d43eb",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>upstream_transcript</th>\n",
       "      <th>upstream_exon</th>\n",
       "      <th>downstream_transcript</th>\n",
       "      <th>downstream_exon</th>\n",
       "      <th>protein_upstream</th>\n",
       "      <th>protein_junction</th>\n",
       "      <th>protein_downstream</th>\n",
       "      <th>inside_codon</th>\n",
       "      <th>same_upstream</th>\n",
       "      <th>same_downstream</th>\n",
       "      <th>junction_mutant</th>\n",
       "      <th>protein_combined</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>QVAGSAVALP</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSM</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>QVAGSAVALPASALPGPDMSM</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>QVAGSAVALP</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKT</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>QVAGSAVALPVYIPKKAASKT</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1-204</td>\n",
       "      <td>3</td>\n",
       "      <td>QVAGSAVALP</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSM</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>QVAGSAVALPASALPGPDMSM</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1-204</td>\n",
       "      <td>6</td>\n",
       "      <td>QVAGSAVALP</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKT</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>QVAGSAVALPVYIPKKAASKT</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1-202</td>\n",
       "      <td>2</td>\n",
       "      <td>QVAGSAVALP</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSM</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>QVAGSAVALPASALPGPDMSM</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>463</th>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1-204</td>\n",
       "      <td>6</td>\n",
       "      <td>SSPEATSGST</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKT</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>SSPEATSGSTVYIPKKAASKT</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>464</th>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1-202</td>\n",
       "      <td>2</td>\n",
       "      <td>SSPEATSGST</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSM</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>SSPEATSGSTASALPGPDMSM</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>465</th>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1-202</td>\n",
       "      <td>5</td>\n",
       "      <td>SSPEATSGST</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKT</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>SSPEATSGSTVYIPKKAASKT</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>466</th>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1-201</td>\n",
       "      <td>2</td>\n",
       "      <td>SSPEATSGST</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSM</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>SSPEATSGSTASALPGPDMSM</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>467</th>\n",
       "      <td>NSD3-201</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1-201</td>\n",
       "      <td>5</td>\n",
       "      <td>SSPEATSGST</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKT</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>SSPEATSGSTVYIPKKAASKT</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>468 rows × 12 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
       "0               MGA-207             22             NUTM1-203                3   \n",
       "1               MGA-207             22             NUTM1-203                6   \n",
       "2               MGA-207             22             NUTM1-204                3   \n",
       "3               MGA-207             22             NUTM1-204                6   \n",
       "4               MGA-207             22             NUTM1-202                2   \n",
       "..                  ...            ...                   ...              ...   \n",
       "463            NSD3-201              7             NUTM1-204                6   \n",
       "464            NSD3-201              7             NUTM1-202                2   \n",
       "465            NSD3-201              7             NUTM1-202                5   \n",
       "466            NSD3-201              7             NUTM1-201                2   \n",
       "467            NSD3-201              7             NUTM1-201                5   \n",
       "\n",
       "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
       "0         QVAGSAVALP                A         SALPGPDMSM          True   \n",
       "1         QVAGSAVALP                V         YIPKKAASKT          True   \n",
       "2         QVAGSAVALP                A         SALPGPDMSM          True   \n",
       "3         QVAGSAVALP                V         YIPKKAASKT          True   \n",
       "4         QVAGSAVALP                A         SALPGPDMSM          True   \n",
       "..               ...              ...                ...           ...   \n",
       "463       SSPEATSGST                V         YIPKKAASKT          True   \n",
       "464       SSPEATSGST                A         SALPGPDMSM          True   \n",
       "465       SSPEATSGST                V         YIPKKAASKT          True   \n",
       "466       SSPEATSGST                A         SALPGPDMSM          True   \n",
       "467       SSPEATSGST                V         YIPKKAASKT          True   \n",
       "\n",
       "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
       "0            False             True            False  QVAGSAVALPASALPGPDMSM  \n",
       "1            False             True            False  QVAGSAVALPVYIPKKAASKT  \n",
       "2            False             True            False  QVAGSAVALPASALPGPDMSM  \n",
       "3            False             True            False  QVAGSAVALPVYIPKKAASKT  \n",
       "4            False             True            False  QVAGSAVALPASALPGPDMSM  \n",
       "..             ...              ...              ...                    ...  \n",
       "463          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
       "464          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
       "465          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
       "466          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
       "467          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
       "\n",
       "[468 rows x 12 columns]"
      ]
     },
     "execution_count": 74,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_short = pd.DataFrame()\n",
    "df_short[\"upstream_transcript\"] = df[\"upstream_transcript\"]\n",
    "df_short[\"upstream_exon\"] = df[\"upstream_last_exon\"]\n",
    "df_short[\"downstream_transcript\"] = df[\"downstream_transcript\"]\n",
    "df_short[\"downstream_exon\"] = df[\"downstream_first_exon\"]\n",
    "\n",
    "df_short[\"protein_upstream\"] = df['protein_upstream'].str.slice(-10, None)\n",
    "df_short[\"protein_junction\"] = df['protein_junction']\n",
    "df_short[\"protein_downstream\"] = df['protein_downstream'].str.slice(0, 10)\n",
    "df_short[\"inside_codon\"] = df[\"junction_inside_codon\"]\n",
    "df_short[\"same_upstream\"] = df[\"junction_same_upstream\"]\n",
    "df_short[\"same_downstream\"] = df[\"junction_same_downstream\"]\n",
    "df_short[\"junction_mutant\"] = df[\"junction_mutant_residue\"]\n",
    "df_short[\"protein_combined\"] = [\n",
    "    row.protein_upstream + row.protein_junction + row.protein_downstream\n",
    "    if row.inside_codon else row.protein_upstream +  row.protein_downstream\n",
    "    for  (_, row)  in df_short.iterrows()\n",
    "];\n",
    "df_short"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 75,
   "id": "8d1fa0d7",
   "metadata": {},
   "outputs": [],
   "source": [
    "df.to_csv(\"nutm1-fusion-sequences.csv\", index=True)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 76,
   "id": "b7e343c9",
   "metadata": {},
   "outputs": [],
   "source": [
    "df_short.to_csv(\"nutm1-fusion-sequences-compact.csv\", index=True)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 77,
   "id": "9299095b",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "EGDIFTFDRTASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "232             CIC-201             18             NUTM1-203                3   \n",
      "234             CIC-201             18             NUTM1-204                3   \n",
      "236             CIC-201             18             NUTM1-202                2   \n",
      "238             CIC-201             18             NUTM1-201                2   \n",
      "240             CIC-206             18             NUTM1-203                3   \n",
      "242             CIC-206             18             NUTM1-204                3   \n",
      "244             CIC-206             18             NUTM1-202                2   \n",
      "246             CIC-206             18             NUTM1-201                2   \n",
      "248             CIC-203             19             NUTM1-203                3   \n",
      "250             CIC-203             19             NUTM1-204                3   \n",
      "252             CIC-203             19             NUTM1-202                2   \n",
      "254             CIC-203             19             NUTM1-201                2   \n",
      "256             CIC-209             19             NUTM1-203                3   \n",
      "258             CIC-209             19             NUTM1-204                3   \n",
      "260             CIC-209             19             NUTM1-202                2   \n",
      "262             CIC-209             19             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "232       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "234       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "236       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "238       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "240       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "242       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "244       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "246       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "248       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "250       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "252       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "254       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "256       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "258       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "260       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "262       EGDIFTFDRT                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "232          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "234          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "236          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "238          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "240          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "242          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "244          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "246          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "248          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "250          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "252          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "254          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "256          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "258          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "260          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "262          False             True            False  EGDIFTFDRTASALPGPDMSM  \n",
      "EGDIFTFDRTVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "233             CIC-201             18             NUTM1-203                6   \n",
      "235             CIC-201             18             NUTM1-204                6   \n",
      "237             CIC-201             18             NUTM1-202                5   \n",
      "239             CIC-201             18             NUTM1-201                5   \n",
      "241             CIC-206             18             NUTM1-203                6   \n",
      "243             CIC-206             18             NUTM1-204                6   \n",
      "245             CIC-206             18             NUTM1-202                5   \n",
      "247             CIC-206             18             NUTM1-201                5   \n",
      "249             CIC-203             19             NUTM1-203                6   \n",
      "251             CIC-203             19             NUTM1-204                6   \n",
      "253             CIC-203             19             NUTM1-202                5   \n",
      "255             CIC-203             19             NUTM1-201                5   \n",
      "257             CIC-209             19             NUTM1-203                6   \n",
      "259             CIC-209             19             NUTM1-204                6   \n",
      "261             CIC-209             19             NUTM1-202                5   \n",
      "263             CIC-209             19             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "233       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "235       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "237       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "239       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "241       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "243       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "245       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "247       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "249       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "251       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "253       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "255       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "257       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "259       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "261       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "263       EGDIFTFDRT                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "233          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "235          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "237          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "239          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "241          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "243          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "245          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "247          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "249          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "251          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "253          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "255          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "257          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "259          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "261          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "263          False             True            False  EGDIFTFDRTVYIPKKAASKT  \n",
      "ILSRKKDQATASALPGPDMSM    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "8              MGA-201             22             NUTM1-203                3   \n",
      "10             MGA-201             22             NUTM1-204                3   \n",
      "12             MGA-201             22             NUTM1-202                2   \n",
      "14             MGA-201             22             NUTM1-201                2   \n",
      "16             MGA-214             22             NUTM1-203                3   \n",
      "18             MGA-214             22             NUTM1-204                3   \n",
      "20             MGA-214             22             NUTM1-202                2   \n",
      "22             MGA-214             22             NUTM1-201                2   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "8        ILSRKKDQAT                A         SALPGPDMSM          True   \n",
      "10       ILSRKKDQAT                A         SALPGPDMSM          True   \n",
      "12       ILSRKKDQAT                A         SALPGPDMSM          True   \n",
      "14       ILSRKKDQAT                A         SALPGPDMSM          True   \n",
      "16       ILSRKKDQAT                A         SALPGPDMSM          True   \n",
      "18       ILSRKKDQAT                A         SALPGPDMSM          True   \n",
      "20       ILSRKKDQAT                A         SALPGPDMSM          True   \n",
      "22       ILSRKKDQAT                A         SALPGPDMSM          True   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "8           False             True            False  ILSRKKDQATASALPGPDMSM  \n",
      "10          False             True            False  ILSRKKDQATASALPGPDMSM  \n",
      "12          False             True            False  ILSRKKDQATASALPGPDMSM  \n",
      "14          False             True            False  ILSRKKDQATASALPGPDMSM  \n",
      "16          False             True            False  ILSRKKDQATASALPGPDMSM  \n",
      "18          False             True            False  ILSRKKDQATASALPGPDMSM  \n",
      "20          False             True            False  ILSRKKDQATASALPGPDMSM  \n",
      "22          False             True            False  ILSRKKDQATASALPGPDMSM  \n",
      "ILSRKKDQATVYIPKKAASKT    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "9              MGA-201             22             NUTM1-203                6   \n",
      "11             MGA-201             22             NUTM1-204                6   \n",
      "13             MGA-201             22             NUTM1-202                5   \n",
      "15             MGA-201             22             NUTM1-201                5   \n",
      "17             MGA-214             22             NUTM1-203                6   \n",
      "19             MGA-214             22             NUTM1-204                6   \n",
      "21             MGA-214             22             NUTM1-202                5   \n",
      "23             MGA-214             22             NUTM1-201                5   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "9        ILSRKKDQAT                V         YIPKKAASKT          True   \n",
      "11       ILSRKKDQAT                V         YIPKKAASKT          True   \n",
      "13       ILSRKKDQAT                V         YIPKKAASKT          True   \n",
      "15       ILSRKKDQAT                V         YIPKKAASKT          True   \n",
      "17       ILSRKKDQAT                V         YIPKKAASKT          True   \n",
      "19       ILSRKKDQAT                V         YIPKKAASKT          True   \n",
      "21       ILSRKKDQAT                V         YIPKKAASKT          True   \n",
      "23       ILSRKKDQAT                V         YIPKKAASKT          True   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "9           False             True            False  ILSRKKDQATVYIPKKAASKT  \n",
      "11          False             True            False  ILSRKKDQATVYIPKKAASKT  \n",
      "13          False             True            False  ILSRKKDQATVYIPKKAASKT  \n",
      "15          False             True            False  ILSRKKDQATVYIPKKAASKT  \n",
      "17          False             True            False  ILSRKKDQATVYIPKKAASKT  \n",
      "19          False             True            False  ILSRKKDQATVYIPKKAASKT  \n",
      "21          False             True            False  ILSRKKDQATVYIPKKAASKT  \n",
      "23          False             True            False  ILSRKKDQATVYIPKKAASKT  \n",
      "KGHPGREQKKMASDGASALP    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "89            BRD4-201             12             NUTM1-204                2   \n",
      "93            BRD4-213             12             NUTM1-204                2   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "89       KGHPGREQKK                          MASDGASALP         False   \n",
      "93       KGHPGREQKK                          MASDGASALP         False   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "89           True             True            False  KGHPGREQKKMASDGASALP  \n",
      "93           True             True            False  KGHPGREQKKMASDGASALP  \n",
      "KGHPGREQKKVEAVIHPQFL    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "90            BRD4-201             12             NUTM1-202                6   \n",
      "91            BRD4-201             12             NUTM1-201                6   \n",
      "94            BRD4-213             12             NUTM1-202                6   \n",
      "95            BRD4-213             12             NUTM1-201                6   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "90       KGHPGREQKK                          VEAVIHPQFL         False   \n",
      "91       KGHPGREQKK                          VEAVIHPQFL         False   \n",
      "94       KGHPGREQKK                          VEAVIHPQFL         False   \n",
      "95       KGHPGREQKK                          VEAVIHPQFL         False   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "90           True             True            False  KGHPGREQKKVEAVIHPQFL  \n",
      "91           True             True            False  KGHPGREQKKVEAVIHPQFL  \n",
      "94           True             True            False  KGHPGREQKKVEAVIHPQFL  \n",
      "95           True             True            False  KGHPGREQKKVEAVIHPQFL  \n",
      "KGHPGREQKKVTLGPGPDCL    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "88            BRD4-201             12             NUTM1-203                2   \n",
      "92            BRD4-213             12             NUTM1-203                2   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "88       KGHPGREQKK                          VTLGPGPDCL         False   \n",
      "92       KGHPGREQKK                          VTLGPGPDCL         False   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "88           True             True            False  KGHPGREQKKVTLGPGPDCL  \n",
      "92           True             True            False  KGHPGREQKKVTLGPGPDCL  \n",
      "KKANSTTTAGRFMEFEAEEMQ     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "137            BRD3-201              9             NUTM1-203                5   \n",
      "139            BRD3-201              9             NUTM1-204                5   \n",
      "141            BRD3-201              9             NUTM1-202                4   \n",
      "143            BRD3-201              9             NUTM1-201                4   \n",
      "145            BRD3-202              9             NUTM1-203                5   \n",
      "147            BRD3-202              9             NUTM1-204                5   \n",
      "149            BRD3-202              9             NUTM1-202                4   \n",
      "151            BRD3-202              9             NUTM1-201                4   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "137       KKANSTTTAG                R         FMEFEAEEMQ          True   \n",
      "139       KKANSTTTAG                R         FMEFEAEEMQ          True   \n",
      "141       KKANSTTTAG                R         FMEFEAEEMQ          True   \n",
      "143       KKANSTTTAG                R         FMEFEAEEMQ          True   \n",
      "145       KKANSTTTAG                R         FMEFEAEEMQ          True   \n",
      "147       KKANSTTTAG                R         FMEFEAEEMQ          True   \n",
      "149       KKANSTTTAG                R         FMEFEAEEMQ          True   \n",
      "151       KKANSTTTAG                R         FMEFEAEEMQ          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "137           True             True            False  KKANSTTTAGRFMEFEAEEMQ  \n",
      "139           True             True            False  KKANSTTTAGRFMEFEAEEMQ  \n",
      "141           True             True            False  KKANSTTTAGRFMEFEAEEMQ  \n",
      "143           True             True            False  KKANSTTTAGRFMEFEAEEMQ  \n",
      "145           True             True            False  KKANSTTTAGRFMEFEAEEMQ  \n",
      "147           True             True            False  KKANSTTTAGRFMEFEAEEMQ  \n",
      "149           True             True            False  KKANSTTTAGRFMEFEAEEMQ  \n",
      "151           True             True            False  KKANSTTTAGRFMEFEAEEMQ  \n",
      "KKANSTTTAGSPVLRSLARLK     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "136            BRD3-201              9             NUTM1-203                4   \n",
      "138            BRD3-201              9             NUTM1-204                4   \n",
      "140            BRD3-201              9             NUTM1-202                3   \n",
      "142            BRD3-201              9             NUTM1-201                3   \n",
      "144            BRD3-202              9             NUTM1-203                4   \n",
      "146            BRD3-202              9             NUTM1-204                4   \n",
      "148            BRD3-202              9             NUTM1-202                3   \n",
      "150            BRD3-202              9             NUTM1-201                3   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "136       KKANSTTTAG                S         PVLRSLARLK          True   \n",
      "138       KKANSTTTAG                S         PVLRSLARLK          True   \n",
      "140       KKANSTTTAG                S         PVLRSLARLK          True   \n",
      "142       KKANSTTTAG                S         PVLRSLARLK          True   \n",
      "144       KKANSTTTAG                S         PVLRSLARLK          True   \n",
      "146       KKANSTTTAG                S         PVLRSLARLK          True   \n",
      "148       KKANSTTTAG                S         PVLRSLARLK          True   \n",
      "150       KKANSTTTAG                S         PVLRSLARLK          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "136          False            False             True  KKANSTTTAGSPVLRSLARLK  \n",
      "138          False            False             True  KKANSTTTAGSPVLRSLARLK  \n",
      "140          False            False             True  KKANSTTTAGSPVLRSLARLK  \n",
      "142          False            False             True  KKANSTTTAGSPVLRSLARLK  \n",
      "144          False            False             True  KKANSTTTAGSPVLRSLARLK  \n",
      "146          False            False             True  KKANSTTTAGSPVLRSLARLK  \n",
      "148          False            False             True  KKANSTTTAGSPVLRSLARLK  \n",
      "150          False            False             True  KKANSTTTAGSPVLRSLARLK  \n",
      "LFQDHGFFPSASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "264             CIC-201             19             NUTM1-203                3   \n",
      "266             CIC-201             19             NUTM1-204                3   \n",
      "268             CIC-201             19             NUTM1-202                2   \n",
      "270             CIC-201             19             NUTM1-201                2   \n",
      "272             CIC-206             19             NUTM1-203                3   \n",
      "274             CIC-206             19             NUTM1-204                3   \n",
      "276             CIC-206             19             NUTM1-202                2   \n",
      "278             CIC-206             19             NUTM1-201                2   \n",
      "280             CIC-203             20             NUTM1-203                3   \n",
      "282             CIC-203             20             NUTM1-204                3   \n",
      "284             CIC-203             20             NUTM1-202                2   \n",
      "286             CIC-203             20             NUTM1-201                2   \n",
      "288             CIC-209             20             NUTM1-203                3   \n",
      "290             CIC-209             20             NUTM1-204                3   \n",
      "292             CIC-209             20             NUTM1-202                2   \n",
      "294             CIC-209             20             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "264       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "266       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "268       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "270       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "272       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "274       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "276       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "278       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "280       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "282       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "284       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "286       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "288       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "290       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "292       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "294       LFQDHGFFPS                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "264           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "266           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "268           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "270           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "272           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "274           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "276           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "278           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "280           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "282           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "284           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "286           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "288           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "290           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "292           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "294           True             True            False  LFQDHGFFPSASALPGPDMSM  \n",
      "LFQDHGFFPSVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "265             CIC-201             19             NUTM1-203                6   \n",
      "267             CIC-201             19             NUTM1-204                6   \n",
      "269             CIC-201             19             NUTM1-202                5   \n",
      "271             CIC-201             19             NUTM1-201                5   \n",
      "273             CIC-206             19             NUTM1-203                6   \n",
      "275             CIC-206             19             NUTM1-204                6   \n",
      "277             CIC-206             19             NUTM1-202                5   \n",
      "279             CIC-206             19             NUTM1-201                5   \n",
      "281             CIC-203             20             NUTM1-203                6   \n",
      "283             CIC-203             20             NUTM1-204                6   \n",
      "285             CIC-203             20             NUTM1-202                5   \n",
      "287             CIC-203             20             NUTM1-201                5   \n",
      "289             CIC-209             20             NUTM1-203                6   \n",
      "291             CIC-209             20             NUTM1-204                6   \n",
      "293             CIC-209             20             NUTM1-202                5   \n",
      "295             CIC-209             20             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "265       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "267       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "269       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "271       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "273       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "275       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "277       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "279       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "281       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "283       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "285       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "287       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "289       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "291       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "293       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "295       LFQDHGFFPS                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "265          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "267          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "269          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "271          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "273          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "275          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "277          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "279          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "281          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "283          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "285          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "287          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "289          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "291          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "293          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "295          False             True            False  LFQDHGFFPSVYIPKKAASKT  \n",
      "LNQHAVVSPPASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "96             BRD4-201             13             NUTM1-203                3   \n",
      "98             BRD4-201             13             NUTM1-204                3   \n",
      "100            BRD4-201             13             NUTM1-202                2   \n",
      "102            BRD4-201             13             NUTM1-201                2   \n",
      "104            BRD4-213             13             NUTM1-203                3   \n",
      "106            BRD4-213             13             NUTM1-204                3   \n",
      "108            BRD4-213             13             NUTM1-202                2   \n",
      "110            BRD4-213             13             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "96        LNQHAVVSPP                A         SALPGPDMSM          True   \n",
      "98        LNQHAVVSPP                A         SALPGPDMSM          True   \n",
      "100       LNQHAVVSPP                A         SALPGPDMSM          True   \n",
      "102       LNQHAVVSPP                A         SALPGPDMSM          True   \n",
      "104       LNQHAVVSPP                A         SALPGPDMSM          True   \n",
      "106       LNQHAVVSPP                A         SALPGPDMSM          True   \n",
      "108       LNQHAVVSPP                A         SALPGPDMSM          True   \n",
      "110       LNQHAVVSPP                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "96            True             True            False  LNQHAVVSPPASALPGPDMSM  \n",
      "98            True             True            False  LNQHAVVSPPASALPGPDMSM  \n",
      "100           True             True            False  LNQHAVVSPPASALPGPDMSM  \n",
      "102           True             True            False  LNQHAVVSPPASALPGPDMSM  \n",
      "104           True             True            False  LNQHAVVSPPASALPGPDMSM  \n",
      "106           True             True            False  LNQHAVVSPPASALPGPDMSM  \n",
      "108           True             True            False  LNQHAVVSPPASALPGPDMSM  \n",
      "110           True             True            False  LNQHAVVSPPASALPGPDMSM  \n",
      "LNQHAVVSPPVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "97             BRD4-201             13             NUTM1-203                6   \n",
      "99             BRD4-201             13             NUTM1-204                6   \n",
      "101            BRD4-201             13             NUTM1-202                5   \n",
      "103            BRD4-201             13             NUTM1-201                5   \n",
      "105            BRD4-213             13             NUTM1-203                6   \n",
      "107            BRD4-213             13             NUTM1-204                6   \n",
      "109            BRD4-213             13             NUTM1-202                5   \n",
      "111            BRD4-213             13             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "97        LNQHAVVSPP                V         YIPKKAASKT          True   \n",
      "99        LNQHAVVSPP                V         YIPKKAASKT          True   \n",
      "101       LNQHAVVSPP                V         YIPKKAASKT          True   \n",
      "103       LNQHAVVSPP                V         YIPKKAASKT          True   \n",
      "105       LNQHAVVSPP                V         YIPKKAASKT          True   \n",
      "107       LNQHAVVSPP                V         YIPKKAASKT          True   \n",
      "109       LNQHAVVSPP                V         YIPKKAASKT          True   \n",
      "111       LNQHAVVSPP                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "97           False             True            False  LNQHAVVSPPVYIPKKAASKT  \n",
      "99           False             True            False  LNQHAVVSPPVYIPKKAASKT  \n",
      "101          False             True            False  LNQHAVVSPPVYIPKKAASKT  \n",
      "103          False             True            False  LNQHAVVSPPVYIPKKAASKT  \n",
      "105          False             True            False  LNQHAVVSPPVYIPKKAASKT  \n",
      "107          False             True            False  LNQHAVVSPPVYIPKKAASKT  \n",
      "109          False             True            False  LNQHAVVSPPVYIPKKAASKT  \n",
      "111          False             True            False  LNQHAVVSPPVYIPKKAASKT  \n",
      "PLKKTFDSVDKFMEFEAEEMQ     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "169             CIC-201             16             NUTM1-203                5   \n",
      "171             CIC-201             16             NUTM1-204                5   \n",
      "173             CIC-201             16             NUTM1-202                4   \n",
      "175             CIC-201             16             NUTM1-201                4   \n",
      "177             CIC-206             16             NUTM1-203                5   \n",
      "179             CIC-206             16             NUTM1-204                5   \n",
      "181             CIC-206             16             NUTM1-202                4   \n",
      "183             CIC-206             16             NUTM1-201                4   \n",
      "185             CIC-203             17             NUTM1-203                5   \n",
      "187             CIC-203             17             NUTM1-204                5   \n",
      "189             CIC-203             17             NUTM1-202                4   \n",
      "191             CIC-203             17             NUTM1-201                4   \n",
      "193             CIC-209             17             NUTM1-203                5   \n",
      "195             CIC-209             17             NUTM1-204                5   \n",
      "197             CIC-209             17             NUTM1-202                4   \n",
      "199             CIC-209             17             NUTM1-201                4   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "169       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "171       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "173       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "175       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "177       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "179       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "181       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "183       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "185       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "187       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "189       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "191       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "193       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "195       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "197       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "199       PLKKTFDSVD                K         FMEFEAEEMQ          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "169          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "171          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "173          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "175          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "177          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "179          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "181          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "183          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "185           True            False            False  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "187           True            False            False  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "189           True            False            False  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "191           True            False            False  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "193          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "195          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "197          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "199          False            False             True  PLKKTFDSVDKFMEFEAEEMQ  \n",
      "PLKKTFDSVDNPVLRSLARLK     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "168             CIC-201             16             NUTM1-203                4   \n",
      "170             CIC-201             16             NUTM1-204                4   \n",
      "172             CIC-201             16             NUTM1-202                3   \n",
      "174             CIC-201             16             NUTM1-201                3   \n",
      "176             CIC-206             16             NUTM1-203                4   \n",
      "178             CIC-206             16             NUTM1-204                4   \n",
      "180             CIC-206             16             NUTM1-202                3   \n",
      "182             CIC-206             16             NUTM1-201                3   \n",
      "184             CIC-203             17             NUTM1-203                4   \n",
      "186             CIC-203             17             NUTM1-204                4   \n",
      "188             CIC-203             17             NUTM1-202                3   \n",
      "190             CIC-203             17             NUTM1-201                3   \n",
      "192             CIC-209             17             NUTM1-203                4   \n",
      "194             CIC-209             17             NUTM1-204                4   \n",
      "196             CIC-209             17             NUTM1-202                3   \n",
      "198             CIC-209             17             NUTM1-201                3   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "168       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "170       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "172       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "174       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "176       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "178       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "180       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "182       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "184       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "186       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "188       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "190       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "192       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "194       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "196       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "198       PLKKTFDSVD                N         PVLRSLARLK          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "168           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "170           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "172           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "174           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "176           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "178           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "180           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "182           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "184          False            False             True  PLKKTFDSVDNPVLRSLARLK  \n",
      "186          False            False             True  PLKKTFDSVDNPVLRSLARLK  \n",
      "188          False            False             True  PLKKTFDSVDNPVLRSLARLK  \n",
      "190          False            False             True  PLKKTFDSVDNPVLRSLARLK  \n",
      "192           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "194           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "196           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "198           True            False            False  PLKKTFDSVDNPVLRSLARLK  \n",
      "PPRNPEGDENLYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "349         SLC12A6-216              2             NUTM1-203                6   \n",
      "351         SLC12A6-216              2             NUTM1-204                6   \n",
      "353         SLC12A6-216              2             NUTM1-202                5   \n",
      "355         SLC12A6-216              2             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "349       PPRNPEGDEN                L         YIPKKAASKT          True   \n",
      "351       PPRNPEGDEN                L         YIPKKAASKT          True   \n",
      "353       PPRNPEGDEN                L         YIPKKAASKT          True   \n",
      "355       PPRNPEGDEN                L         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "349          False            False             True  PPRNPEGDENLYIPKKAASKT  \n",
      "351          False            False             True  PPRNPEGDENLYIPKKAASKT  \n",
      "353          False            False             True  PPRNPEGDENLYIPKKAASKT  \n",
      "355          False            False             True  PPRNPEGDENLYIPKKAASKT  \n",
      "PPRNPEGDENSSALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "348         SLC12A6-216              2             NUTM1-203                3   \n",
      "350         SLC12A6-216              2             NUTM1-204                3   \n",
      "352         SLC12A6-216              2             NUTM1-202                2   \n",
      "354         SLC12A6-216              2             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "348       PPRNPEGDEN                S         SALPGPDMSM          True   \n",
      "350       PPRNPEGDEN                S         SALPGPDMSM          True   \n",
      "352       PPRNPEGDEN                S         SALPGPDMSM          True   \n",
      "354       PPRNPEGDEN                S         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "348          False            False             True  PPRNPEGDENSSALPGPDMSM  \n",
      "350          False            False             True  PPRNPEGDENSSALPGPDMSM  \n",
      "352          False            False             True  PPRNPEGDENSSALPGPDMSM  \n",
      "354          False            False             True  PPRNPEGDENSSALPGPDMSM  \n",
      "PQQNVQPKKQMASDGASALP     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "129            BRD4-201             15             NUTM1-204                2   \n",
      "133            BRD4-213             15             NUTM1-204                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "129       PQQNVQPKKQ                          MASDGASALP         False   \n",
      "133       PQQNVQPKKQ                          MASDGASALP         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "129           True             True            False  PQQNVQPKKQMASDGASALP  \n",
      "133           True             True            False  PQQNVQPKKQMASDGASALP  \n",
      "PQQNVQPKKQVEAVIHPQFL     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "130            BRD4-201             15             NUTM1-202                6   \n",
      "131            BRD4-201             15             NUTM1-201                6   \n",
      "134            BRD4-213             15             NUTM1-202                6   \n",
      "135            BRD4-213             15             NUTM1-201                6   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "130       PQQNVQPKKQ                          VEAVIHPQFL         False   \n",
      "131       PQQNVQPKKQ                          VEAVIHPQFL         False   \n",
      "134       PQQNVQPKKQ                          VEAVIHPQFL         False   \n",
      "135       PQQNVQPKKQ                          VEAVIHPQFL         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "130           True             True            False  PQQNVQPKKQVEAVIHPQFL  \n",
      "131           True             True            False  PQQNVQPKKQVEAVIHPQFL  \n",
      "134           True             True            False  PQQNVQPKKQVEAVIHPQFL  \n",
      "135           True             True            False  PQQNVQPKKQVEAVIHPQFL  \n",
      "PQQNVQPKKQVTLGPGPDCL     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "128            BRD4-201             15             NUTM1-203                2   \n",
      "132            BRD4-213             15             NUTM1-203                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "128       PQQNVQPKKQ                          VTLGPGPDCL         False   \n",
      "132       PQQNVQPKKQ                          VTLGPGPDCL         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "128           True             True            False  PQQNVQPKKQVTLGPGPDCL  \n",
      "132           True             True            False  PQQNVQPKKQVTLGPGPDCL  \n",
      "QVAGSAVALPASALPGPDMSM   upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "0             MGA-207             22             NUTM1-203                3   \n",
      "2             MGA-207             22             NUTM1-204                3   \n",
      "4             MGA-207             22             NUTM1-202                2   \n",
      "6             MGA-207             22             NUTM1-201                2   \n",
      "\n",
      "  protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "0       QVAGSAVALP                A         SALPGPDMSM          True   \n",
      "2       QVAGSAVALP                A         SALPGPDMSM          True   \n",
      "4       QVAGSAVALP                A         SALPGPDMSM          True   \n",
      "6       QVAGSAVALP                A         SALPGPDMSM          True   \n",
      "\n",
      "   same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "0          False             True            False  QVAGSAVALPASALPGPDMSM  \n",
      "2          False             True            False  QVAGSAVALPASALPGPDMSM  \n",
      "4          False             True            False  QVAGSAVALPASALPGPDMSM  \n",
      "6          False             True            False  QVAGSAVALPASALPGPDMSM  \n",
      "QVAGSAVALPVYIPKKAASKT   upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "1             MGA-207             22             NUTM1-203                6   \n",
      "3             MGA-207             22             NUTM1-204                6   \n",
      "5             MGA-207             22             NUTM1-202                5   \n",
      "7             MGA-207             22             NUTM1-201                5   \n",
      "\n",
      "  protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "1       QVAGSAVALP                V         YIPKKAASKT          True   \n",
      "3       QVAGSAVALP                V         YIPKKAASKT          True   \n",
      "5       QVAGSAVALP                V         YIPKKAASKT          True   \n",
      "7       QVAGSAVALP                V         YIPKKAASKT          True   \n",
      "\n",
      "   same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "1          False             True            False  QVAGSAVALPVYIPKKAASKT  \n",
      "3          False             True            False  QVAGSAVALPVYIPKKAASKT  \n",
      "5          False             True            False  QVAGSAVALPVYIPKKAASKT  \n",
      "7          False             True            False  QVAGSAVALPVYIPKKAASKT  \n",
      "RHHKSDPYSTASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "112            BRD4-201             14             NUTM1-203                3   \n",
      "114            BRD4-201             14             NUTM1-204                3   \n",
      "116            BRD4-201             14             NUTM1-202                2   \n",
      "118            BRD4-201             14             NUTM1-201                2   \n",
      "120            BRD4-213             14             NUTM1-203                3   \n",
      "122            BRD4-213             14             NUTM1-204                3   \n",
      "124            BRD4-213             14             NUTM1-202                2   \n",
      "126            BRD4-213             14             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "112       RHHKSDPYST                A         SALPGPDMSM          True   \n",
      "114       RHHKSDPYST                A         SALPGPDMSM          True   \n",
      "116       RHHKSDPYST                A         SALPGPDMSM          True   \n",
      "118       RHHKSDPYST                A         SALPGPDMSM          True   \n",
      "120       RHHKSDPYST                A         SALPGPDMSM          True   \n",
      "122       RHHKSDPYST                A         SALPGPDMSM          True   \n",
      "124       RHHKSDPYST                A         SALPGPDMSM          True   \n",
      "126       RHHKSDPYST                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "112          False             True            False  RHHKSDPYSTASALPGPDMSM  \n",
      "114          False             True            False  RHHKSDPYSTASALPGPDMSM  \n",
      "116          False             True            False  RHHKSDPYSTASALPGPDMSM  \n",
      "118          False             True            False  RHHKSDPYSTASALPGPDMSM  \n",
      "120          False             True            False  RHHKSDPYSTASALPGPDMSM  \n",
      "122          False             True            False  RHHKSDPYSTASALPGPDMSM  \n",
      "124          False             True            False  RHHKSDPYSTASALPGPDMSM  \n",
      "126          False             True            False  RHHKSDPYSTASALPGPDMSM  \n",
      "RHHKSDPYSTVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "113            BRD4-201             14             NUTM1-203                6   \n",
      "115            BRD4-201             14             NUTM1-204                6   \n",
      "117            BRD4-201             14             NUTM1-202                5   \n",
      "119            BRD4-201             14             NUTM1-201                5   \n",
      "121            BRD4-213             14             NUTM1-203                6   \n",
      "123            BRD4-213             14             NUTM1-204                6   \n",
      "125            BRD4-213             14             NUTM1-202                5   \n",
      "127            BRD4-213             14             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "113       RHHKSDPYST                V         YIPKKAASKT          True   \n",
      "115       RHHKSDPYST                V         YIPKKAASKT          True   \n",
      "117       RHHKSDPYST                V         YIPKKAASKT          True   \n",
      "119       RHHKSDPYST                V         YIPKKAASKT          True   \n",
      "121       RHHKSDPYST                V         YIPKKAASKT          True   \n",
      "123       RHHKSDPYST                V         YIPKKAASKT          True   \n",
      "125       RHHKSDPYST                V         YIPKKAASKT          True   \n",
      "127       RHHKSDPYST                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "113          False             True            False  RHHKSDPYSTVYIPKKAASKT  \n",
      "115          False             True            False  RHHKSDPYSTVYIPKKAASKT  \n",
      "117          False             True            False  RHHKSDPYSTVYIPKKAASKT  \n",
      "119          False             True            False  RHHKSDPYSTVYIPKKAASKT  \n",
      "121          False             True            False  RHHKSDPYSTVYIPKKAASKT  \n",
      "123          False             True            False  RHHKSDPYSTVYIPKKAASKT  \n",
      "125          False             True            False  RHHKSDPYSTVYIPKKAASKT  \n",
      "127          False             True            False  RHHKSDPYSTVYIPKKAASKT  \n",
      "RTSAKGPETMMASDGASALP     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "161             CIC-203             16             NUTM1-204                2   \n",
      "165             CIC-209             16             NUTM1-204                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "161       RTSAKGPETM                          MASDGASALP         False   \n",
      "165       RTSAKGPETM                          MASDGASALP         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "161           True             True            False  RTSAKGPETMMASDGASALP  \n",
      "165           True             True            False  RTSAKGPETMMASDGASALP  \n",
      "RTSAKGPETMVEAVIHPQFL     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "162             CIC-203             16             NUTM1-202                6   \n",
      "163             CIC-203             16             NUTM1-201                6   \n",
      "166             CIC-209             16             NUTM1-202                6   \n",
      "167             CIC-209             16             NUTM1-201                6   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "162       RTSAKGPETM                          VEAVIHPQFL         False   \n",
      "163       RTSAKGPETM                          VEAVIHPQFL         False   \n",
      "166       RTSAKGPETM                          VEAVIHPQFL         False   \n",
      "167       RTSAKGPETM                          VEAVIHPQFL         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "162           True             True            False  RTSAKGPETMVEAVIHPQFL  \n",
      "163           True             True            False  RTSAKGPETMVEAVIHPQFL  \n",
      "166           True             True            False  RTSAKGPETMVEAVIHPQFL  \n",
      "167           True             True            False  RTSAKGPETMVEAVIHPQFL  \n",
      "RTSAKGPETMVTLGPGPDCL     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "160             CIC-203             16             NUTM1-203                2   \n",
      "164             CIC-209             16             NUTM1-203                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "160       RTSAKGPETM                          VTLGPGPDCL         False   \n",
      "164       RTSAKGPETM                          VTLGPGPDCL         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "160           True             True            False  RTSAKGPETMVTLGPGPDCL  \n",
      "164           True             True            False  RTSAKGPETMVTLGPGPDCL  \n",
      "RTSHPQDVIEASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "296         SLC12A6-202              2             NUTM1-203                3   \n",
      "298         SLC12A6-202              2             NUTM1-204                3   \n",
      "300         SLC12A6-202              2             NUTM1-202                2   \n",
      "302         SLC12A6-202              2             NUTM1-201                2   \n",
      "332         SLC12A6-205              2             NUTM1-203                3   \n",
      "334         SLC12A6-205              2             NUTM1-204                3   \n",
      "336         SLC12A6-205              2             NUTM1-202                2   \n",
      "338         SLC12A6-205              2             NUTM1-201                2   \n",
      "340         SLC12A6-203              2             NUTM1-203                3   \n",
      "342         SLC12A6-203              2             NUTM1-204                3   \n",
      "344         SLC12A6-203              2             NUTM1-202                2   \n",
      "346         SLC12A6-203              2             NUTM1-201                2   \n",
      "356         SLC12A6-207              2             NUTM1-203                3   \n",
      "358         SLC12A6-207              2             NUTM1-204                3   \n",
      "360         SLC12A6-207              2             NUTM1-202                2   \n",
      "362         SLC12A6-207              2             NUTM1-201                2   \n",
      "364         SLC12A6-206              2             NUTM1-203                3   \n",
      "366         SLC12A6-206              2             NUTM1-204                3   \n",
      "368         SLC12A6-206              2             NUTM1-202                2   \n",
      "370         SLC12A6-206              2             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "296       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "298       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "300       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "302       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "332       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "334       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "336       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "338       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "340       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "342       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "344       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "346       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "356       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "358       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "360       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "362       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "364       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "366       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "368       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "370       RTSHPQDVIE                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "296          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "298          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "300          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "302          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "332          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "334          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "336          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "338          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "340          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "342          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "344          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "346          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "356          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "358          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "360          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "362          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "364          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "366          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "368          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "370          False             True            False  RTSHPQDVIEASALPGPDMSM  \n",
      "RTSHPQDVIEVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "297         SLC12A6-202              2             NUTM1-203                6   \n",
      "299         SLC12A6-202              2             NUTM1-204                6   \n",
      "301         SLC12A6-202              2             NUTM1-202                5   \n",
      "303         SLC12A6-202              2             NUTM1-201                5   \n",
      "333         SLC12A6-205              2             NUTM1-203                6   \n",
      "335         SLC12A6-205              2             NUTM1-204                6   \n",
      "337         SLC12A6-205              2             NUTM1-202                5   \n",
      "339         SLC12A6-205              2             NUTM1-201                5   \n",
      "341         SLC12A6-203              2             NUTM1-203                6   \n",
      "343         SLC12A6-203              2             NUTM1-204                6   \n",
      "345         SLC12A6-203              2             NUTM1-202                5   \n",
      "347         SLC12A6-203              2             NUTM1-201                5   \n",
      "357         SLC12A6-207              2             NUTM1-203                6   \n",
      "359         SLC12A6-207              2             NUTM1-204                6   \n",
      "361         SLC12A6-207              2             NUTM1-202                5   \n",
      "363         SLC12A6-207              2             NUTM1-201                5   \n",
      "365         SLC12A6-206              2             NUTM1-203                6   \n",
      "367         SLC12A6-206              2             NUTM1-204                6   \n",
      "369         SLC12A6-206              2             NUTM1-202                5   \n",
      "371         SLC12A6-206              2             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "297       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "299       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "301       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "303       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "333       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "335       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "337       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "339       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "341       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "343       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "345       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "347       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "357       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "359       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "361       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "363       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "365       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "367       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "369       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "371       RTSHPQDVIE                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "297          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "299          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "301          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "303          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "333          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "335          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "337          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "339          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "341          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "343          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "345          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "347          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "357          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "359          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "361          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "363          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "365          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "367          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "369          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "371          False             True            False  RTSHPQDVIEVYIPKKAASKT  \n",
      "SAVSTDDSEQASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "152            MXD4-201              5             NUTM1-203                3   \n",
      "154            MXD4-201              5             NUTM1-204                3   \n",
      "156            MXD4-201              5             NUTM1-202                2   \n",
      "158            MXD4-201              5             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "152       SAVSTDDSEQ                A         SALPGPDMSM          True   \n",
      "154       SAVSTDDSEQ                A         SALPGPDMSM          True   \n",
      "156       SAVSTDDSEQ                A         SALPGPDMSM          True   \n",
      "158       SAVSTDDSEQ                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "152          False             True            False  SAVSTDDSEQASALPGPDMSM  \n",
      "154          False             True            False  SAVSTDDSEQASALPGPDMSM  \n",
      "156          False             True            False  SAVSTDDSEQASALPGPDMSM  \n",
      "158          False             True            False  SAVSTDDSEQASALPGPDMSM  \n",
      "SAVSTDDSEQVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "153            MXD4-201              5             NUTM1-203                6   \n",
      "155            MXD4-201              5             NUTM1-204                6   \n",
      "157            MXD4-201              5             NUTM1-202                5   \n",
      "159            MXD4-201              5             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "153       SAVSTDDSEQ                V         YIPKKAASKT          True   \n",
      "155       SAVSTDDSEQ                V         YIPKKAASKT          True   \n",
      "157       SAVSTDDSEQ                V         YIPKKAASKT          True   \n",
      "159       SAVSTDDSEQ                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "153          False             True            False  SAVSTDDSEQVYIPKKAASKT  \n",
      "155          False             True            False  SAVSTDDSEQVYIPKKAASKT  \n",
      "157          False             True            False  SAVSTDDSEQVYIPKKAASKT  \n",
      "159          False             True            False  SAVSTDDSEQVYIPKKAASKT  \n",
      "SCLRKKRKPQASALPGPDMSM    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "24            BRD4-201             10             NUTM1-203                3   \n",
      "26            BRD4-201             10             NUTM1-204                3   \n",
      "28            BRD4-201             10             NUTM1-202                2   \n",
      "30            BRD4-201             10             NUTM1-201                2   \n",
      "32            BRD4-213             10             NUTM1-203                3   \n",
      "34            BRD4-213             10             NUTM1-204                3   \n",
      "36            BRD4-213             10             NUTM1-202                2   \n",
      "38            BRD4-213             10             NUTM1-201                2   \n",
      "40            BRD4-203             10             NUTM1-203                3   \n",
      "42            BRD4-203             10             NUTM1-204                3   \n",
      "44            BRD4-203             10             NUTM1-202                2   \n",
      "46            BRD4-203             10             NUTM1-201                2   \n",
      "48            BRD4-202             10             NUTM1-203                3   \n",
      "50            BRD4-202             10             NUTM1-204                3   \n",
      "52            BRD4-202             10             NUTM1-202                2   \n",
      "54            BRD4-202             10             NUTM1-201                2   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "24       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "26       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "28       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "30       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "32       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "34       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "36       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "38       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "40       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "42       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "44       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "46       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "48       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "50       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "52       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "54       SCLRKKRKPQ                A         SALPGPDMSM          True   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "24           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "26           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "28           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "30           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "32           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "34           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "36           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "38           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "40           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "42           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "44           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "46           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "48           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "50           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "52           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "54           True             True            False  SCLRKKRKPQASALPGPDMSM  \n",
      "SCLRKKRKPQVYIPKKAASKT    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "25            BRD4-201             10             NUTM1-203                6   \n",
      "27            BRD4-201             10             NUTM1-204                6   \n",
      "29            BRD4-201             10             NUTM1-202                5   \n",
      "31            BRD4-201             10             NUTM1-201                5   \n",
      "33            BRD4-213             10             NUTM1-203                6   \n",
      "35            BRD4-213             10             NUTM1-204                6   \n",
      "37            BRD4-213             10             NUTM1-202                5   \n",
      "39            BRD4-213             10             NUTM1-201                5   \n",
      "41            BRD4-203             10             NUTM1-203                6   \n",
      "43            BRD4-203             10             NUTM1-204                6   \n",
      "45            BRD4-203             10             NUTM1-202                5   \n",
      "47            BRD4-203             10             NUTM1-201                5   \n",
      "49            BRD4-202             10             NUTM1-203                6   \n",
      "51            BRD4-202             10             NUTM1-204                6   \n",
      "53            BRD4-202             10             NUTM1-202                5   \n",
      "55            BRD4-202             10             NUTM1-201                5   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "25       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "27       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "29       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "31       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "33       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "35       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "37       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "39       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "41       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "43       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "45       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "47       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "49       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "51       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "53       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "55       SCLRKKRKPQ                V         YIPKKAASKT          True   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "25          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "27          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "29          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "31          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "33          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "35          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "37          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "39          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "41          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "43          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "45          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "47          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "49          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "51          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "53          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "55          False             True            False  SCLRKKRKPQVYIPKKAASKT  \n",
      "SITGEHSQLLASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "304         SLC12A6-201              2             NUTM1-203                3   \n",
      "306         SLC12A6-201              2             NUTM1-204                3   \n",
      "308         SLC12A6-201              2             NUTM1-202                2   \n",
      "310         SLC12A6-201              2             NUTM1-201                2   \n",
      "312         SLC12A6-221              2             NUTM1-203                3   \n",
      "314         SLC12A6-221              2             NUTM1-204                3   \n",
      "316         SLC12A6-221              2             NUTM1-202                2   \n",
      "318         SLC12A6-221              2             NUTM1-201                2   \n",
      "324         SLC12A6-217              2             NUTM1-203                3   \n",
      "326         SLC12A6-217              2             NUTM1-204                3   \n",
      "328         SLC12A6-217              2             NUTM1-202                2   \n",
      "330         SLC12A6-217              2             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "304       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "306       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "308       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "310       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "312       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "314       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "316       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "318       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "324       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "326       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "328       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "330       SITGEHSQLL                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "304          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "306          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "308          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "310          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "312          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "314          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "316          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "318          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "324          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "326          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "328          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "330          False             True            False  SITGEHSQLLASALPGPDMSM  \n",
      "SITGEHSQLLVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "305         SLC12A6-201              2             NUTM1-203                6   \n",
      "307         SLC12A6-201              2             NUTM1-204                6   \n",
      "309         SLC12A6-201              2             NUTM1-202                5   \n",
      "311         SLC12A6-201              2             NUTM1-201                5   \n",
      "313         SLC12A6-221              2             NUTM1-203                6   \n",
      "315         SLC12A6-221              2             NUTM1-204                6   \n",
      "317         SLC12A6-221              2             NUTM1-202                5   \n",
      "319         SLC12A6-221              2             NUTM1-201                5   \n",
      "325         SLC12A6-217              2             NUTM1-203                6   \n",
      "327         SLC12A6-217              2             NUTM1-204                6   \n",
      "329         SLC12A6-217              2             NUTM1-202                5   \n",
      "331         SLC12A6-217              2             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "305       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "307       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "309       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "311       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "313       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "315       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "317       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "319       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "325       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "327       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "329       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "331       SITGEHSQLL                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "305          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "307          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "309          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "311          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "313          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "315          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "317          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "319          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "325          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "327          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "329          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "331          False             True            False  SITGEHSQLLVYIPKKAASKT  \n",
      "SSPEATSGSTASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "436            NSD3-202              7             NUTM1-203                3   \n",
      "438            NSD3-202              7             NUTM1-204                3   \n",
      "440            NSD3-202              7             NUTM1-202                2   \n",
      "442            NSD3-202              7             NUTM1-201                2   \n",
      "444            NSD3-203              7             NUTM1-203                3   \n",
      "446            NSD3-203              7             NUTM1-204                3   \n",
      "448            NSD3-203              7             NUTM1-202                2   \n",
      "450            NSD3-203              7             NUTM1-201                2   \n",
      "452            NSD3-206              7             NUTM1-203                3   \n",
      "454            NSD3-206              7             NUTM1-204                3   \n",
      "456            NSD3-206              7             NUTM1-202                2   \n",
      "458            NSD3-206              7             NUTM1-201                2   \n",
      "460            NSD3-201              7             NUTM1-203                3   \n",
      "462            NSD3-201              7             NUTM1-204                3   \n",
      "464            NSD3-201              7             NUTM1-202                2   \n",
      "466            NSD3-201              7             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "436       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "438       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "440       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "442       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "444       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "446       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "448       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "450       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "452       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "454       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "456       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "458       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "460       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "462       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "464       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "466       SSPEATSGST                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "436          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "438          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "440          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "442          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "444          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "446          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "448          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "450          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "452          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "454          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "456          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "458          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "460          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "462          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "464          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "466          False             True            False  SSPEATSGSTASALPGPDMSM  \n",
      "SSPEATSGSTVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "437            NSD3-202              7             NUTM1-203                6   \n",
      "439            NSD3-202              7             NUTM1-204                6   \n",
      "441            NSD3-202              7             NUTM1-202                5   \n",
      "443            NSD3-202              7             NUTM1-201                5   \n",
      "445            NSD3-203              7             NUTM1-203                6   \n",
      "447            NSD3-203              7             NUTM1-204                6   \n",
      "449            NSD3-203              7             NUTM1-202                5   \n",
      "451            NSD3-203              7             NUTM1-201                5   \n",
      "453            NSD3-206              7             NUTM1-203                6   \n",
      "455            NSD3-206              7             NUTM1-204                6   \n",
      "457            NSD3-206              7             NUTM1-202                5   \n",
      "459            NSD3-206              7             NUTM1-201                5   \n",
      "461            NSD3-201              7             NUTM1-203                6   \n",
      "463            NSD3-201              7             NUTM1-204                6   \n",
      "465            NSD3-201              7             NUTM1-202                5   \n",
      "467            NSD3-201              7             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "437       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "439       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "441       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "443       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "445       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "447       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "449       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "451       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "453       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "455       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "457       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "459       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "461       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "463       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "465       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "467       SSPEATSGST                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "437          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "439          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "441          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "443          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "445          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "447          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "449          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "451          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "453          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "455          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "457          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "459          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "461          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "463          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "465          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "467          False             True            False  SSPEATSGSTVYIPKKAASKT  \n",
      "SSSDSEDSETASALPGPDMSM    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "56            BRD4-201             11             NUTM1-203                3   \n",
      "58            BRD4-201             11             NUTM1-204                3   \n",
      "60            BRD4-201             11             NUTM1-202                2   \n",
      "62            BRD4-201             11             NUTM1-201                2   \n",
      "64            BRD4-213             11             NUTM1-203                3   \n",
      "66            BRD4-213             11             NUTM1-204                3   \n",
      "68            BRD4-213             11             NUTM1-202                2   \n",
      "70            BRD4-213             11             NUTM1-201                2   \n",
      "72            BRD4-203             11             NUTM1-203                3   \n",
      "74            BRD4-203             11             NUTM1-204                3   \n",
      "76            BRD4-203             11             NUTM1-202                2   \n",
      "78            BRD4-203             11             NUTM1-201                2   \n",
      "80            BRD4-202             11             NUTM1-203                3   \n",
      "82            BRD4-202             11             NUTM1-204                3   \n",
      "84            BRD4-202             11             NUTM1-202                2   \n",
      "86            BRD4-202             11             NUTM1-201                2   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "56       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "58       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "60       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "62       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "64       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "66       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "68       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "70       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "72       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "74       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "76       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "78       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "80       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "82       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "84       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "86       SSSDSEDSET                A         SALPGPDMSM          True   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "56          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "58          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "60          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "62          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "64          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "66          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "68          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "70          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "72          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "74          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "76          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "78          False             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "80           True             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "82           True             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "84           True             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "86           True             True            False  SSSDSEDSETASALPGPDMSM  \n",
      "SSSDSEDSETVYIPKKAASKT    upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "57            BRD4-201             11             NUTM1-203                6   \n",
      "59            BRD4-201             11             NUTM1-204                6   \n",
      "61            BRD4-201             11             NUTM1-202                5   \n",
      "63            BRD4-201             11             NUTM1-201                5   \n",
      "65            BRD4-213             11             NUTM1-203                6   \n",
      "67            BRD4-213             11             NUTM1-204                6   \n",
      "69            BRD4-213             11             NUTM1-202                5   \n",
      "71            BRD4-213             11             NUTM1-201                5   \n",
      "73            BRD4-203             11             NUTM1-203                6   \n",
      "75            BRD4-203             11             NUTM1-204                6   \n",
      "77            BRD4-203             11             NUTM1-202                5   \n",
      "79            BRD4-203             11             NUTM1-201                5   \n",
      "81            BRD4-202             11             NUTM1-203                6   \n",
      "83            BRD4-202             11             NUTM1-204                6   \n",
      "85            BRD4-202             11             NUTM1-202                5   \n",
      "87            BRD4-202             11             NUTM1-201                5   \n",
      "\n",
      "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "57       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "59       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "61       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "63       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "65       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "67       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "69       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "71       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "73       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "75       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "77       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "79       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "81       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "83       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "85       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "87       SSSDSEDSET                V         YIPKKAASKT          True   \n",
      "\n",
      "    same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "57          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "59          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "61          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "63          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "65          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "67          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "69          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "71          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "73          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "75          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "77          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "79          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "81          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "83          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "85          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "87          False             True            False  SSSDSEDSETVYIPKKAASKT  \n",
      "SYRKKRKNSTASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "200             CIC-201             17             NUTM1-203                3   \n",
      "202             CIC-201             17             NUTM1-204                3   \n",
      "204             CIC-201             17             NUTM1-202                2   \n",
      "206             CIC-201             17             NUTM1-201                2   \n",
      "208             CIC-206             17             NUTM1-203                3   \n",
      "210             CIC-206             17             NUTM1-204                3   \n",
      "212             CIC-206             17             NUTM1-202                2   \n",
      "214             CIC-206             17             NUTM1-201                2   \n",
      "216             CIC-203             18             NUTM1-203                3   \n",
      "218             CIC-203             18             NUTM1-204                3   \n",
      "220             CIC-203             18             NUTM1-202                2   \n",
      "222             CIC-203             18             NUTM1-201                2   \n",
      "224             CIC-209             18             NUTM1-203                3   \n",
      "226             CIC-209             18             NUTM1-204                3   \n",
      "228             CIC-209             18             NUTM1-202                2   \n",
      "230             CIC-209             18             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "200       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "202       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "204       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "206       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "208       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "210       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "212       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "214       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "216       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "218       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "220       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "222       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "224       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "226       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "228       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "230       SYRKKRKNST                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "200          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "202          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "204          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "206          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "208          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "210          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "212          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "214          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "216          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "218          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "220          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "222          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "224          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "226          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "228          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "230          False             True            False  SYRKKRKNSTASALPGPDMSM  \n",
      "SYRKKRKNSTVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "201             CIC-201             17             NUTM1-203                6   \n",
      "203             CIC-201             17             NUTM1-204                6   \n",
      "205             CIC-201             17             NUTM1-202                5   \n",
      "207             CIC-201             17             NUTM1-201                5   \n",
      "209             CIC-206             17             NUTM1-203                6   \n",
      "211             CIC-206             17             NUTM1-204                6   \n",
      "213             CIC-206             17             NUTM1-202                5   \n",
      "215             CIC-206             17             NUTM1-201                5   \n",
      "217             CIC-203             18             NUTM1-203                6   \n",
      "219             CIC-203             18             NUTM1-204                6   \n",
      "221             CIC-203             18             NUTM1-202                5   \n",
      "223             CIC-203             18             NUTM1-201                5   \n",
      "225             CIC-209             18             NUTM1-203                6   \n",
      "227             CIC-209             18             NUTM1-204                6   \n",
      "229             CIC-209             18             NUTM1-202                5   \n",
      "231             CIC-209             18             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "201       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "203       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "205       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "207       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "209       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "211       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "213       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "215       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "217       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "219       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "221       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "223       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "225       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "227       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "229       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "231       SYRKKRKNST                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "201          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "203          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "205          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "207          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "209          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "211          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "213          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "215          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "217          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "219          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "221          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "223          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "225          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "227          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "229          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "231          False             True            False  SYRKKRKNSTVYIPKKAASKT  \n",
      "VQQNMMNSASASALPGPDMSM     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "372            YAP1-201              3             NUTM1-203                3   \n",
      "374            YAP1-201              3             NUTM1-204                3   \n",
      "376            YAP1-201              3             NUTM1-202                2   \n",
      "378            YAP1-201              3             NUTM1-201                2   \n",
      "380            YAP1-204              3             NUTM1-203                3   \n",
      "382            YAP1-204              3             NUTM1-204                3   \n",
      "384            YAP1-204              3             NUTM1-202                2   \n",
      "386            YAP1-204              3             NUTM1-201                2   \n",
      "388            YAP1-209              3             NUTM1-203                3   \n",
      "390            YAP1-209              3             NUTM1-204                3   \n",
      "392            YAP1-209              3             NUTM1-202                2   \n",
      "394            YAP1-209              3             NUTM1-201                2   \n",
      "396            YAP1-202              3             NUTM1-203                3   \n",
      "398            YAP1-202              3             NUTM1-204                3   \n",
      "400            YAP1-202              3             NUTM1-202                2   \n",
      "402            YAP1-202              3             NUTM1-201                2   \n",
      "404            YAP1-210              3             NUTM1-203                3   \n",
      "406            YAP1-210              3             NUTM1-204                3   \n",
      "408            YAP1-210              3             NUTM1-202                2   \n",
      "410            YAP1-210              3             NUTM1-201                2   \n",
      "412            YAP1-211              3             NUTM1-203                3   \n",
      "414            YAP1-211              3             NUTM1-204                3   \n",
      "416            YAP1-211              3             NUTM1-202                2   \n",
      "418            YAP1-211              3             NUTM1-201                2   \n",
      "420            YAP1-208              3             NUTM1-203                3   \n",
      "422            YAP1-208              3             NUTM1-204                3   \n",
      "424            YAP1-208              3             NUTM1-202                2   \n",
      "426            YAP1-208              3             NUTM1-201                2   \n",
      "428            YAP1-203              3             NUTM1-203                3   \n",
      "430            YAP1-203              3             NUTM1-204                3   \n",
      "432            YAP1-203              3             NUTM1-202                2   \n",
      "434            YAP1-203              3             NUTM1-201                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "372       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "374       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "376       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "378       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "380       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "382       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "384       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "386       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "388       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "390       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "392       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "394       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "396       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "398       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "400       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "402       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "404       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "406       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "408       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "410       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "412       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "414       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "416       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "418       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "420       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "422       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "424       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "426       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "428       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "430       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "432       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "434       VQQNMMNSAS                A         SALPGPDMSM          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "372          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "374          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "376          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "378          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "380           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "382           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "384           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "386           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "388          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "390          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "392          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "394          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "396           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "398           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "400           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "402           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "404          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "406          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "408          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "410          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "412           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "414           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "416           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "418           True             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "420          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "422          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "424          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "426          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "428          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "430          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "432          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "434          False             True            False  VQQNMMNSASASALPGPDMSM  \n",
      "VQQNMMNSASVYIPKKAASKT     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "373            YAP1-201              3             NUTM1-203                6   \n",
      "375            YAP1-201              3             NUTM1-204                6   \n",
      "377            YAP1-201              3             NUTM1-202                5   \n",
      "379            YAP1-201              3             NUTM1-201                5   \n",
      "381            YAP1-204              3             NUTM1-203                6   \n",
      "383            YAP1-204              3             NUTM1-204                6   \n",
      "385            YAP1-204              3             NUTM1-202                5   \n",
      "387            YAP1-204              3             NUTM1-201                5   \n",
      "389            YAP1-209              3             NUTM1-203                6   \n",
      "391            YAP1-209              3             NUTM1-204                6   \n",
      "393            YAP1-209              3             NUTM1-202                5   \n",
      "395            YAP1-209              3             NUTM1-201                5   \n",
      "397            YAP1-202              3             NUTM1-203                6   \n",
      "399            YAP1-202              3             NUTM1-204                6   \n",
      "401            YAP1-202              3             NUTM1-202                5   \n",
      "403            YAP1-202              3             NUTM1-201                5   \n",
      "405            YAP1-210              3             NUTM1-203                6   \n",
      "407            YAP1-210              3             NUTM1-204                6   \n",
      "409            YAP1-210              3             NUTM1-202                5   \n",
      "411            YAP1-210              3             NUTM1-201                5   \n",
      "413            YAP1-211              3             NUTM1-203                6   \n",
      "415            YAP1-211              3             NUTM1-204                6   \n",
      "417            YAP1-211              3             NUTM1-202                5   \n",
      "419            YAP1-211              3             NUTM1-201                5   \n",
      "421            YAP1-208              3             NUTM1-203                6   \n",
      "423            YAP1-208              3             NUTM1-204                6   \n",
      "425            YAP1-208              3             NUTM1-202                5   \n",
      "427            YAP1-208              3             NUTM1-201                5   \n",
      "429            YAP1-203              3             NUTM1-203                6   \n",
      "431            YAP1-203              3             NUTM1-204                6   \n",
      "433            YAP1-203              3             NUTM1-202                5   \n",
      "435            YAP1-203              3             NUTM1-201                5   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "373       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "375       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "377       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "379       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "381       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "383       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "385       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "387       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "389       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "391       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "393       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "395       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "397       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "399       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "401       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "403       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "405       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "407       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "409       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "411       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "413       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "415       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "417       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "419       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "421       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "423       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "425       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "427       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "429       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "431       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "433       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "435       VQQNMMNSAS                V         YIPKKAASKT          True   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant       protein_combined  \n",
      "373          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "375          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "377          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "379          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "381          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "383          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "385          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "387          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "389          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "391          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "393          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "395          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "397          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "399          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "401          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "403          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "405          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "407          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "409          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "411          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "413          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "415          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "417          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "419          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "421          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "423          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "425          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "427          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "429          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "431          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "433          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "435          False             True            False  VQQNMMNSASVYIPKKAASKT  \n",
      "YFDKNLALFEMASDGASALP     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "321         SLC12A6-204              2             NUTM1-204                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "321       YFDKNLALFE                          MASDGASALP         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "321           True             True            False  YFDKNLALFEMASDGASALP  \n",
      "YFDKNLALFEVEAVIHPQFL     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "322         SLC12A6-204              2             NUTM1-202                6   \n",
      "323         SLC12A6-204              2             NUTM1-201                6   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "322       YFDKNLALFE                          VEAVIHPQFL         False   \n",
      "323       YFDKNLALFE                          VEAVIHPQFL         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "322           True             True            False  YFDKNLALFEVEAVIHPQFL  \n",
      "323           True             True            False  YFDKNLALFEVEAVIHPQFL  \n",
      "YFDKNLALFEVTLGPGPDCL     upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
      "320         SLC12A6-204              2             NUTM1-203                2   \n",
      "\n",
      "    protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
      "320       YFDKNLALFE                          VTLGPGPDCL         False   \n",
      "\n",
      "     same_upstream  same_downstream  junction_mutant      protein_combined  \n",
      "320           True             True            False  YFDKNLALFEVTLGPGPDCL  \n"
     ]
    }
   ],
   "source": [
    "for p, g, in df_short.groupby(\"protein_combined\"):\n",
    "    print(p, g)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 241,
   "id": "6353df59",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "'MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPPPPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPTEETEIMIVQAKGRGRGRKETGTAKPGVSTVPNTTQASTPPQTQTPQPNPPPVQATPHPFPAVTPDLIVQTPVMTVVPPQPLQTPPPVPPQPQPPPAPAPQPVQSHPPIIAATPQPVKTKKGVKRKADTTTPTTIDPIHEPPSLPPEPKTTKLGQRRESSRPVKPPKKDVPDSQQHPAPEKSSKVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEPEEPVVAVSSPAVPPPTKVVAPPSSSDSSSDSSSDSDSSTDDSEEERAQRLAELQEQLKAVHEQLAALSQPQQNKPKKKEKDKKEKKKEKHKRKEEVEENKKSKAKEPPPKKTKKNNSSNSNVSKKEPAPMKSKPPPTYESEEEDKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPSLKNSNPDEIEIDFETLKPSTLRELERYVTSCLRKKRKPQAEKVDVIAGSSKMKGFSSSESESSSESSSSDSEDSETEMAPKSKKKGHPGREQKKHHHHHHQQMQQAPAPVPQQPPPPPQQPPPPPPPQQQQQPPPPPPPPSMPQQAAPAMKSSPPPFIATQVPVLEPQLPGSVFDPIGHFTQPILHLPQPELPPHLPQPPEHSTPPHLNQHAVVSPPALHNALPQQPSRPSNRAAALPPKPARPPAVSPALTQTPLLPQPPMAQPPQVLLEDEEPPAPPLTSMQMQLYLQQLQKVQPPTPLLPSVKVQSQPPPPLPPPPHPSVQQQLQQQPPPPPPPQPQPPPQQQHQPPPRPVHLQPMQFSTHIQQPPPPQGQQPPHPPPGQQPPPPQPAKPQQVIQHHHSPRHHKSDPYSTGHLREAPSPLMIHSPQMSQFQSLTHQSPPQQNVQPKKQELRAASVVQPQPLVVVKEEKIHSPIIRSEPFSPSLRPEPPKHPESIKAPVHLPQRPEMKPVDVGRPVIRPPEQNAPPPGAPDKDKQKQEPKTPVAPKKDLKIKNMGSWASLVQKHPTTPSSTAKSSSDSFEQFRRAAREKEEREKALKAQAEHAEKEKERLRQERMRSREDEDALEQARRAHEEARRRQEQQQQQRQEQQQQQQQQAAAVAAAATPQAQSSQPQSMLDQQRELARKREQERRRREAMAATIDMNFQSDLLSIFEENLF'"
      ]
     },
     "execution_count": 241,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "name_to_transcript[\"BRD4\"].protein_sequence"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 251,
   "id": "f1944542",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "'PGPDCLILEASRQPQLVPKPERMASDGASALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMPSVFSPDNPLMLSAFPSSLLVTGDGGPCLSGAGAGKVIVKVKTEGGSAEPSQTQNFILTQTALNSTAPGTPCGGLEGPAPPFVTASNVKTILPSKAVGVSQEGPPGLPPQPPPPVAQLVPIVPLEKAWPGPHGTTGEGGPVATLSKPSLGDRSKISKDVYENFRQWQRYKALARRHLSQSPDTEALSCFLIPVLRSLARLKPTMTLEEGLPLAVQEWEHTSNFDRMIFYEMAERFMEFEAEEMQIQNTQLMNGSQGLSPATPLKLDPLGPLASEVCQQPVYIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEWLVGTHLATGESDGKQEEEGQQQEEEGMYPDPGLLSYINELCSQKVFVSKVEAVIHPQFLADLLSPEKQRDPLALIEELEQEEGLTLAQLVQKRLMALEEEEDAEAPPSFSGAQLDSSPSGSVEDEDGDGRLRPSPGLQGAGGAACLGKVSSSGKRAREVHGGQEQALDSPRGMHRDGNTLPSPSSWDLQPELAAPQGTPGPLGVERRGSGKVINQVSLHQDGHLGGAGPPGHCLVADRTSEALPLCWQGGFQPESTPSLDAGLAELAPLQGQGLEKQVLGLQKGQQTGGRGVLPQGKEPLAVPWEGSSGAMWGDDRGTPMAQSYDQNPSPRAAGERDDVCLSPGVWLSSEMDAVGLELPVQIEEVIESFQVEKCVTEYQEGCQGLGSRGNISLGPGETLVPGDTESSVIPCGGTVAAAALEKRNYCSLPGPLRANSPPLRSKENQEQSCETVGHPSDLWAEGCFPLLESGDSTLGSSKETLPPTCQGNLLIMGTEDASSLPEASQEAGSRGNSFSPLLETIEPVNILDVKDDCGLQLRVSEDTCPLNVHSYDPQGEGRVDPDLSKPKNLAPLQESQESYTTGTPKATSSHQGLGSTLPRRGTRNAIVPRETSVSKTHRSADRAKGKEKKKKEAEEEDEELSNFAYLLASKLSLSPREHPLSPHHASGGQGSQRASHLLPAGAKGPSKLPYPVAKSGKRALAGGPAPTEKTPHSGAQLGVPREKPLALGVVRPSQPRKRRCDSFVTGRRKKRRRSQ'"
      ]
     },
     "execution_count": 251,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "name_to_transcript[\"NUTM1\"].protein_sequence[6:]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 249,
   "id": "46f55477",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>upstream_transcript</th>\n",
       "      <th>upstream_exon</th>\n",
       "      <th>downstream_transcript</th>\n",
       "      <th>downstream_exon</th>\n",
       "      <th>protein_upstream</th>\n",
       "      <th>protein_junction</th>\n",
       "      <th>protein_downstream</th>\n",
       "      <th>inside_codon</th>\n",
       "      <th>same_upstream</th>\n",
       "      <th>same_downstream</th>\n",
       "      <th>junction_mutant</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>14</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>RHHKSDPYST</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSM</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>10</th>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>14</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>RHHKSDPYST</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKT</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>19</th>\n",
       "      <td>CIC-209</td>\n",
       "      <td>18</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>SYRKKRKNST</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSM</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>20</th>\n",
       "      <td>CIC-209</td>\n",
       "      <td>18</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>SYRKKRKNST</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKT</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>29</th>\n",
       "      <td>NSD3-202</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>SSPEATSGST</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSM</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>30</th>\n",
       "      <td>NSD3-202</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>SSPEATSGST</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKT</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "   upstream_transcript  upstream_exon downstream_transcript  downstream_exon  \\\n",
       "9             BRD4-213             14             NUTM1-203                3   \n",
       "10            BRD4-213             14             NUTM1-203                6   \n",
       "19             CIC-209             18             NUTM1-203                3   \n",
       "20             CIC-209             18             NUTM1-203                6   \n",
       "29            NSD3-202              7             NUTM1-203                3   \n",
       "30            NSD3-202              7             NUTM1-203                6   \n",
       "\n",
       "   protein_upstream protein_junction protein_downstream  inside_codon  \\\n",
       "9        RHHKSDPYST                A         SALPGPDMSM          True   \n",
       "10       RHHKSDPYST                V         YIPKKAASKT          True   \n",
       "19       SYRKKRKNST                A         SALPGPDMSM          True   \n",
       "20       SYRKKRKNST                V         YIPKKAASKT          True   \n",
       "29       SSPEATSGST                A         SALPGPDMSM          True   \n",
       "30       SSPEATSGST                V         YIPKKAASKT          True   \n",
       "\n",
       "    same_upstream  same_downstream  junction_mutant  \n",
       "9           False             True            False  \n",
       "10          False             True            False  \n",
       "19          False             True            False  \n",
       "20          False             True            False  \n",
       "29          False             True            False  \n",
       "30          False             True            False  "
      ]
     },
     "execution_count": 249,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_short[df_short.protein_upstream.str.slice(-2, None) == \"ST\"]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 250,
   "id": "1bf50387",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>upstream_gene</th>\n",
       "      <th>upstream_transcript</th>\n",
       "      <th>upstream_last_exon</th>\n",
       "      <th>downstream_gene</th>\n",
       "      <th>downstream_transcript</th>\n",
       "      <th>downstream_first_exon</th>\n",
       "      <th>upstream_cds</th>\n",
       "      <th>downstream_cds</th>\n",
       "      <th>junction_inside_codon</th>\n",
       "      <th>protein_upstream</th>\n",
       "      <th>protein_junction</th>\n",
       "      <th>protein_downstream</th>\n",
       "      <th>junction_same_upstream</th>\n",
       "      <th>junction_same_downstream</th>\n",
       "      <th>junction_same_in_both</th>\n",
       "      <th>junction_same_in_either</th>\n",
       "      <th>junction_mutant_residue</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>MGA</td>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>MGA</td>\n",
       "      <td>MGA-207</td>\n",
       "      <td>22</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>10</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>10</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>11</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>11</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>12</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>2</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>GTTACTCTGGGTCCTGGACCTGACTGCCTCATTCTGGAGGCTTCCA...</td>\n",
       "      <td>False</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td></td>\n",
       "      <td>VTLGPGPDCLILEASRQPQLVPKPERMASDGASALPGPDMSMKPSA...</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>13</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>13</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>14</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>10</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>14</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>11</th>\n",
       "      <td>BRD4</td>\n",
       "      <td>BRD4-213</td>\n",
       "      <td>15</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>2</td>\n",
       "      <td>ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...</td>\n",
       "      <td>GTTACTCTGGGTCCTGGACCTGACTGCCTCATTCTGGAGGCTTCCA...</td>\n",
       "      <td>False</td>\n",
       "      <td>MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...</td>\n",
       "      <td></td>\n",
       "      <td>VTLGPGPDCLILEASRQPQLVPKPERMASDGASALPGPDMSMKPSA...</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>12</th>\n",
       "      <td>BRD3</td>\n",
       "      <td>BRD3-201</td>\n",
       "      <td>9</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>4</td>\n",
       "      <td>ATGTCCACCGCCACGACAGTCGCCCCCGCGGGGATCCCGGCGACCC...</td>\n",
       "      <td>CCCAGTGCTTCGTTCCCTGGCCCGGCTGAAGCCCACTATGACCCTG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSTATTVAPAGIPATPGPVNPPPPEVSNPSKPGRKTNQLQYMQNVV...</td>\n",
       "      <td>S</td>\n",
       "      <td>PVLRSLARLKPTMTLEEGLPLAVQEWEHTSNFDRMIFYEMAERFME...</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>13</th>\n",
       "      <td>BRD3</td>\n",
       "      <td>BRD3-201</td>\n",
       "      <td>9</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>5</td>\n",
       "      <td>ATGTCCACCGCCACGACAGTCGCCCCCGCGGGGATCCCGGCGACCC...</td>\n",
       "      <td>GTTCATGGAGTTTGAGGCTGAGGAGATGCAGATTCAGAACACACAG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MSTATTVAPAGIPATPGPVNPPPPEVSNPSKPGRKTNQLQYMQNVV...</td>\n",
       "      <td>R</td>\n",
       "      <td>FMEFEAEEMQIQNTQLMNGSQGLSPATPLKLDPLGPLASEVCQQPV...</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>14</th>\n",
       "      <td>MXD4</td>\n",
       "      <td>MXD4-201</td>\n",
       "      <td>5</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGGAGCTGAACTCCCTGCTGATCCTGCTGGAGGCGGCCGAGTACC...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MELNSLLILLEAAEYLERRDREAEHGYASVLPFDGDFAREKTKAAG...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>15</th>\n",
       "      <td>MXD4</td>\n",
       "      <td>MXD4-201</td>\n",
       "      <td>5</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGGAGCTGAACTCCCTGCTGATCCTGCTGGAGGCGGCCGAGTACC...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MELNSLLILLEAAEYLERRDREAEHGYASVLPFDGDFAREKTKAAG...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>16</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>16</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>2</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>GTTACTCTGGGTCCTGGACCTGACTGCCTCATTCTGGAGGCTTCCA...</td>\n",
       "      <td>False</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td></td>\n",
       "      <td>VTLGPGPDCLILEASRQPQLVPKPERMASDGASALPGPDMSMKPSA...</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>17</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>17</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>4</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>CCCAGTGCTTCGTTCCCTGGCCCGGCTGAAGCCCACTATGACCCTG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td>N</td>\n",
       "      <td>PVLRSLARLKPTMTLEEGLPLAVQEWEHTSNFDRMIFYEMAERFME...</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>18</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>17</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>5</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>GTTCATGGAGTTTGAGGCTGAGGAGATGCAGATTCAGAACACACAG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td>K</td>\n",
       "      <td>FMEFEAEEMQIQNTQLMNGSQGLSPATPLKLDPLGPLASEVCQQPV...</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>19</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>18</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>20</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>18</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>21</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>19</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>22</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>19</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>23</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>20</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>24</th>\n",
       "      <td>CIC</td>\n",
       "      <td>CIC-209</td>\n",
       "      <td>20</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>25</th>\n",
       "      <td>SLC12A6</td>\n",
       "      <td>SLC12A6-221</td>\n",
       "      <td>2</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGCATCCTCCAGAAACCACCACCAAGATGGCTTCAGTTCGGTTCA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MHPPETTTKMASVRFMVTPTKIDDIPGLSDTSPDLSSRSSSRVRFS...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26</th>\n",
       "      <td>SLC12A6</td>\n",
       "      <td>SLC12A6-221</td>\n",
       "      <td>2</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGCATCCTCCAGAAACCACCACCAAGATGGCTTCAGTTCGGTTCA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MHPPETTTKMASVRFMVTPTKIDDIPGLSDTSPDLSSRSSSRVRFS...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>27</th>\n",
       "      <td>YAP1</td>\n",
       "      <td>YAP1-201</td>\n",
       "      <td>3</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGGATCCCGGGCAGCAGCCGCCGCCTCAACCGGCCCCCCAGGGCC...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDPGQQPPPQPAPQGQGQPPSQPPQGQGPPSGPGQPAPAATQAAPQ...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>28</th>\n",
       "      <td>YAP1</td>\n",
       "      <td>YAP1-201</td>\n",
       "      <td>3</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGGATCCCGGGCAGCAGCCGCCGCCTCAACCGGCCCCCCAGGGCC...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDPGQQPPPQPAPQGQGQPPSQPPQGQGPPSGPGQPAPAATQAAPQ...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>29</th>\n",
       "      <td>NSD3</td>\n",
       "      <td>NSD3-202</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>3</td>\n",
       "      <td>ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...</td>\n",
       "      <td>CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...</td>\n",
       "      <td>A</td>\n",
       "      <td>SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>30</th>\n",
       "      <td>NSD3</td>\n",
       "      <td>NSD3-202</td>\n",
       "      <td>7</td>\n",
       "      <td>NUTM1</td>\n",
       "      <td>NUTM1-203</td>\n",
       "      <td>6</td>\n",
       "      <td>ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...</td>\n",
       "      <td>TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...</td>\n",
       "      <td>True</td>\n",
       "      <td>MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...</td>\n",
       "      <td>V</td>\n",
       "      <td>YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "   upstream_gene upstream_transcript  upstream_last_exon downstream_gene  \\\n",
       "0            MGA             MGA-207                  22           NUTM1   \n",
       "1            MGA             MGA-207                  22           NUTM1   \n",
       "2           BRD4            BRD4-213                  10           NUTM1   \n",
       "3           BRD4            BRD4-213                  10           NUTM1   \n",
       "4           BRD4            BRD4-213                  11           NUTM1   \n",
       "5           BRD4            BRD4-213                  11           NUTM1   \n",
       "6           BRD4            BRD4-213                  12           NUTM1   \n",
       "7           BRD4            BRD4-213                  13           NUTM1   \n",
       "8           BRD4            BRD4-213                  13           NUTM1   \n",
       "9           BRD4            BRD4-213                  14           NUTM1   \n",
       "10          BRD4            BRD4-213                  14           NUTM1   \n",
       "11          BRD4            BRD4-213                  15           NUTM1   \n",
       "12          BRD3            BRD3-201                   9           NUTM1   \n",
       "13          BRD3            BRD3-201                   9           NUTM1   \n",
       "14          MXD4            MXD4-201                   5           NUTM1   \n",
       "15          MXD4            MXD4-201                   5           NUTM1   \n",
       "16           CIC             CIC-209                  16           NUTM1   \n",
       "17           CIC             CIC-209                  17           NUTM1   \n",
       "18           CIC             CIC-209                  17           NUTM1   \n",
       "19           CIC             CIC-209                  18           NUTM1   \n",
       "20           CIC             CIC-209                  18           NUTM1   \n",
       "21           CIC             CIC-209                  19           NUTM1   \n",
       "22           CIC             CIC-209                  19           NUTM1   \n",
       "23           CIC             CIC-209                  20           NUTM1   \n",
       "24           CIC             CIC-209                  20           NUTM1   \n",
       "25       SLC12A6         SLC12A6-221                   2           NUTM1   \n",
       "26       SLC12A6         SLC12A6-221                   2           NUTM1   \n",
       "27          YAP1            YAP1-201                   3           NUTM1   \n",
       "28          YAP1            YAP1-201                   3           NUTM1   \n",
       "29          NSD3            NSD3-202                   7           NUTM1   \n",
       "30          NSD3            NSD3-202                   7           NUTM1   \n",
       "\n",
       "   downstream_transcript  downstream_first_exon  \\\n",
       "0              NUTM1-203                      3   \n",
       "1              NUTM1-203                      6   \n",
       "2              NUTM1-203                      3   \n",
       "3              NUTM1-203                      6   \n",
       "4              NUTM1-203                      3   \n",
       "5              NUTM1-203                      6   \n",
       "6              NUTM1-203                      2   \n",
       "7              NUTM1-203                      3   \n",
       "8              NUTM1-203                      6   \n",
       "9              NUTM1-203                      3   \n",
       "10             NUTM1-203                      6   \n",
       "11             NUTM1-203                      2   \n",
       "12             NUTM1-203                      4   \n",
       "13             NUTM1-203                      5   \n",
       "14             NUTM1-203                      3   \n",
       "15             NUTM1-203                      6   \n",
       "16             NUTM1-203                      2   \n",
       "17             NUTM1-203                      4   \n",
       "18             NUTM1-203                      5   \n",
       "19             NUTM1-203                      3   \n",
       "20             NUTM1-203                      6   \n",
       "21             NUTM1-203                      3   \n",
       "22             NUTM1-203                      6   \n",
       "23             NUTM1-203                      3   \n",
       "24             NUTM1-203                      6   \n",
       "25             NUTM1-203                      3   \n",
       "26             NUTM1-203                      6   \n",
       "27             NUTM1-203                      3   \n",
       "28             NUTM1-203                      6   \n",
       "29             NUTM1-203                      3   \n",
       "30             NUTM1-203                      6   \n",
       "\n",
       "                                         upstream_cds  \\\n",
       "0   ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...   \n",
       "1   ATGGAGGAGAAACAGCAGATTATATTGGCTAATCAAGATGGTGGAA...   \n",
       "2   ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "3   ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "4   ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "5   ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "6   ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "7   ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "8   ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "9   ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "10  ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "11  ATGTCTGCGGAGAGCGGCCCTGGGACGAGATTGAGAAATCTGCCAG...   \n",
       "12  ATGTCCACCGCCACGACAGTCGCCCCCGCGGGGATCCCGGCGACCC...   \n",
       "13  ATGTCCACCGCCACGACAGTCGCCCCCGCGGGGATCCCGGCGACCC...   \n",
       "14  ATGGAGCTGAACTCCCTGCTGATCCTGCTGGAGGCGGCCGAGTACC...   \n",
       "15  ATGGAGCTGAACTCCCTGCTGATCCTGCTGGAGGCGGCCGAGTACC...   \n",
       "16  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "17  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "18  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "19  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "20  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "21  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "22  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "23  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "24  ATGAAGCCAATGAAGAAGGCATGCACTGGCCTTTCAGGTCCTGGCA...   \n",
       "25  ATGCATCCTCCAGAAACCACCACCAAGATGGCTTCAGTTCGGTTCA...   \n",
       "26  ATGCATCCTCCAGAAACCACCACCAAGATGGCTTCAGTTCGGTTCA...   \n",
       "27  ATGGATCCCGGGCAGCAGCCGCCGCCTCAACCGGCCCCCCAGGGCC...   \n",
       "28  ATGGATCCCGGGCAGCAGCCGCCGCCTCAACCGGCCCCCCAGGGCC...   \n",
       "29  ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...   \n",
       "30  ATGGATTTCTCTTTCTCTTTCATGCAAGGGATCATGGGAAACACAA...   \n",
       "\n",
       "                                       downstream_cds  junction_inside_codon  \\\n",
       "0   CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "1   TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "2   CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "3   TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "4   CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "5   TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "6   GTTACTCTGGGTCCTGGACCTGACTGCCTCATTCTGGAGGCTTCCA...                  False   \n",
       "7   CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "8   TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "9   CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "10  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "11  GTTACTCTGGGTCCTGGACCTGACTGCCTCATTCTGGAGGCTTCCA...                  False   \n",
       "12  CCCAGTGCTTCGTTCCCTGGCCCGGCTGAAGCCCACTATGACCCTG...                   True   \n",
       "13  GTTCATGGAGTTTGAGGCTGAGGAGATGCAGATTCAGAACACACAG...                   True   \n",
       "14  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "15  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "16  GTTACTCTGGGTCCTGGACCTGACTGCCTCATTCTGGAGGCTTCCA...                  False   \n",
       "17  CCCAGTGCTTCGTTCCCTGGCCCGGCTGAAGCCCACTATGACCCTG...                   True   \n",
       "18  GTTCATGGAGTTTGAGGCTGAGGAGATGCAGATTCAGAACACACAG...                   True   \n",
       "19  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "20  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "21  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "22  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "23  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "24  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "25  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "26  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "27  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "28  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "29  CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGC...                   True   \n",
       "30  TGTACATTCCGAAGAAGGCAGCCTCCAAGACACGGGCCCCCCGCCG...                   True   \n",
       "\n",
       "                                     protein_upstream protein_junction  \\\n",
       "0   MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...                A   \n",
       "1   MEEKQQIILANQDGGTVAGAAPTFFVILKQPGNGKTDQGILVTNQD...                V   \n",
       "2   MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                A   \n",
       "3   MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                V   \n",
       "4   MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                A   \n",
       "5   MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                V   \n",
       "6   MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                    \n",
       "7   MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                A   \n",
       "8   MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                V   \n",
       "9   MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                A   \n",
       "10  MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                V   \n",
       "11  MSAESGPGTRLRNLPVMGDGLETSQMSTTQAQAQPQPANAASTNPP...                    \n",
       "12  MSTATTVAPAGIPATPGPVNPPPPEVSNPSKPGRKTNQLQYMQNVV...                S   \n",
       "13  MSTATTVAPAGIPATPGPVNPPPPEVSNPSKPGRKTNQLQYMQNVV...                R   \n",
       "14  MELNSLLILLEAAEYLERRDREAEHGYASVLPFDGDFAREKTKAAG...                A   \n",
       "15  MELNSLLILLEAAEYLERRDREAEHGYASVLPFDGDFAREKTKAAG...                V   \n",
       "16  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                    \n",
       "17  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                N   \n",
       "18  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                K   \n",
       "19  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                A   \n",
       "20  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                V   \n",
       "21  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                A   \n",
       "22  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                V   \n",
       "23  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                A   \n",
       "24  MKPMKKACTGLSGPGSGSKSPPATRAKALRRRGAGEGDKPEEEDDE...                V   \n",
       "25  MHPPETTTKMASVRFMVTPTKIDDIPGLSDTSPDLSSRSSSRVRFS...                A   \n",
       "26  MHPPETTTKMASVRFMVTPTKIDDIPGLSDTSPDLSSRSSSRVRFS...                V   \n",
       "27  MDPGQQPPPQPAPQGQGQPPSQPPQGQGPPSGPGQPAPAATQAAPQ...                A   \n",
       "28  MDPGQQPPPQPAPQGQGQPPSQPPQGQGPPSGPGQPAPAATQAAPQ...                V   \n",
       "29  MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...                A   \n",
       "30  MDFSFSFMQGIMGNTIQQPPQLIDSANIRQEDAFDNNSDIAEDGGQ...                V   \n",
       "\n",
       "                                   protein_downstream  junction_same_upstream  \\\n",
       "0   SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "1   YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "2   SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                    True   \n",
       "3   YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "4   SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "5   YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "6   VTLGPGPDCLILEASRQPQLVPKPERMASDGASALPGPDMSMKPSA...                    True   \n",
       "7   SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                    True   \n",
       "8   YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "9   SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "10  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "11  VTLGPGPDCLILEASRQPQLVPKPERMASDGASALPGPDMSMKPSA...                    True   \n",
       "12  PVLRSLARLKPTMTLEEGLPLAVQEWEHTSNFDRMIFYEMAERFME...                   False   \n",
       "13  FMEFEAEEMQIQNTQLMNGSQGLSPATPLKLDPLGPLASEVCQQPV...                    True   \n",
       "14  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "15  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "16  VTLGPGPDCLILEASRQPQLVPKPERMASDGASALPGPDMSMKPSA...                    True   \n",
       "17  PVLRSLARLKPTMTLEEGLPLAVQEWEHTSNFDRMIFYEMAERFME...                    True   \n",
       "18  FMEFEAEEMQIQNTQLMNGSQGLSPATPLKLDPLGPLASEVCQQPV...                   False   \n",
       "19  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "20  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "21  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "22  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "23  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                    True   \n",
       "24  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "25  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "26  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "27  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "28  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "29  SALPGPDMSMKPSAAPSPSPALPFLPPTSDPPDHPPREPPPQPIMP...                   False   \n",
       "30  YIPKKAASKTRAPRRRQRKAQRPPAPEAPKEIPPEAVKEYVDIMEW...                   False   \n",
       "\n",
       "    junction_same_downstream  junction_same_in_both  junction_same_in_either  \\\n",
       "0                       True                  False                     True   \n",
       "1                       True                  False                     True   \n",
       "2                       True                   True                     True   \n",
       "3                       True                  False                     True   \n",
       "4                       True                  False                     True   \n",
       "5                       True                  False                     True   \n",
       "6                       True                   True                     True   \n",
       "7                       True                   True                     True   \n",
       "8                       True                  False                     True   \n",
       "9                       True                  False                     True   \n",
       "10                      True                  False                     True   \n",
       "11                      True                   True                     True   \n",
       "12                     False                  False                    False   \n",
       "13                      True                   True                     True   \n",
       "14                      True                  False                     True   \n",
       "15                      True                  False                     True   \n",
       "16                      True                   True                     True   \n",
       "17                     False                  False                     True   \n",
       "18                     False                  False                    False   \n",
       "19                      True                  False                     True   \n",
       "20                      True                  False                     True   \n",
       "21                      True                  False                     True   \n",
       "22                      True                  False                     True   \n",
       "23                      True                   True                     True   \n",
       "24                      True                  False                     True   \n",
       "25                      True                  False                     True   \n",
       "26                      True                  False                     True   \n",
       "27                      True                  False                     True   \n",
       "28                      True                  False                     True   \n",
       "29                      True                  False                     True   \n",
       "30                      True                  False                     True   \n",
       "\n",
       "    junction_mutant_residue  \n",
       "0                     False  \n",
       "1                     False  \n",
       "2                     False  \n",
       "3                     False  \n",
       "4                     False  \n",
       "5                     False  \n",
       "6                     False  \n",
       "7                     False  \n",
       "8                     False  \n",
       "9                     False  \n",
       "10                    False  \n",
       "11                    False  \n",
       "12                     True  \n",
       "13                    False  \n",
       "14                    False  \n",
       "15                    False  \n",
       "16                    False  \n",
       "17                    False  \n",
       "18                     True  \n",
       "19                    False  \n",
       "20                    False  \n",
       "21                    False  \n",
       "22                    False  \n",
       "23                    False  \n",
       "24                    False  \n",
       "25                    False  \n",
       "26                    False  \n",
       "27                    False  \n",
       "28                    False  \n",
       "29                    False  \n",
       "30                    False  "
      ]
     },
     "execution_count": 250,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "50b804fb",
   "metadata": {},
   "outputs": [],
   "source": []
  }
 ],
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