Locations
ktym edited this page May 16, 2014
·
7 revisions
-
CDS
-
The concept of CDS is ambiguous.
-
INSDC location
http://togows.org/entry/nucleotide/NC_000019 (Human genome GRCh38 chr19)
gene complement(2289774..2308156)
/gene="LINGO3"
/gene_synonym="LERN2; LRRN6B"
/note="leucine rich repeat and Ig domain containing 3;
Derived by automated computational analysis using gene
prediction method: BestRefSeq."
/db_xref="GeneID:645191"
/db_xref="HGNC:21206"
/db_xref="MIM:609792"
mRNA complement(join(2289774..2291821,2308075..2308156))
/gene="LINGO3"
/gene_synonym="LERN2; LRRN6B"
/product="leucine rich repeat and Ig domain containing 3"
/note="Derived by automated computational analysis using
gene prediction method: BestRefSeq."
/transcript_id="NM_001101391.1"
/db_xref="GI:157426828"
/db_xref="GeneID:645191"
/db_xref="HGNC:21206"
/db_xref="MIM:609792"
CDS complement(2289997..2291775)
/gene="LINGO3"
/gene_synonym="LERN2; LRRN6B"
/note="Derived by automated computational analysis using
gene prediction method: BestRefSeq."
/codon_start=1
/product="leucine-rich repeat and immunoglobulin-like
domain-containing nogo receptor-interacting protein 3
precursor"
/protein_id="NP_001094861.1"
/db_xref="GI:157426829"
/db_xref="CCDS:CCDS45905.1"
/db_xref="GeneID:645191"
/db_xref="HGNC:21206"
/db_xref="MIM:609792"
/translation="MTCWLCVLSLPLLLLPAAPPPAGGCPARCECTVQTRAVACTRRR
LTAVPDGIPAETRLLELSRNRIRCLNPGDLAALPALEELDLSENAIAHVEPGAFANLP
RLRVLRLRGNQLKLIPPGVFTRLDNLTLLDLSENKLVILLDYTFQDLHSLRRLEVGDN
DLVFVSRRAFAGLLALEELTLERCNLTALSGESLGHLRSLGALRLRHLAIASLEDQNF
RRLPGLLHLEIDNWPLLEEVAAGSLRGLNLTSLSVTHTNITAVPAAALRHQAHLTCLN
LSHNPISTVPRGSFRDLVRLRELHLAGALLAVVEPQAFLGLRQIRLLNLSNNLLSTLE
ESTFHSVNTLETLRVDGNPLACDCRLLWIVQRRKTLNFDGRLPACATPAEVRGDALRN
LPDSVLFEYFVCRKPKIRERRLQRVTATAGEDVRFLCRAEGEPAPTVAWVTPQHRPVT
ATSAGRARVLPGGTLEIQDARPQDSGTYTCVASNAGGNDTYFATLTVRPEPAANRTPG
EAHNETLAALRAPLDLTTILVSTAMGCITFLGVVLFCFVLLFVWSRGRGQHKNNFSVE
YSFRKVDGPAAAAGQGGARKFNMKMI"
http://togows.org/entry/nucleotide/NC_000013
LOCUS NC_000013 114364328 bp DNA linear CON 03-FEB-2014
DEFINITION Homo sapiens chromosome 13, GRCh38 Primary Assembly.
ACCESSION NC_000013 GPC_000001305
VERSION NC_000013.11 GI:568815585
DBLINK BioProject: PRJNA168
Assembly: GCF_000001405.26
KEYWORDS RefSeq.
SOURCE Homo sapiens (human)
ORGANISM Homo sapiens
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
Catarrhini; Hominidae; Homo.
REFERENCE 1 (bases 1 to 114364328)
CONSRTM International Human Genome Sequencing Consortium
TITLE Finishing the euchromatic sequence of the human genome
JOURNAL Nature 431 (7011), 931-945 (2004)
PUBMED 15496913
:
COMMENT REFSEQ INFORMATION: The reference sequence is identical to
CM000675.2.
On Feb 3, 2014 this sequence version replaced gi:224589804.
Assembly Name: GRCh38 Primary Assembly
The DNA sequence is composed of genomic sequence, primarily
finished clones that were sequenced as part of the Human Genome
Project. PCR products and WGS shotgun sequence have been added
where necessary to fill gaps or correct errors. All such additions
are manually curated by GRC staff. For more information see:
http://genomereference.org.
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI
Annotation Status :: Full annotation
Annotation Version :: Homo sapiens Annotation Release 106
Annotation Pipeline :: NCBI eukaryotic genome annotation
pipeline
Annotation Software Version :: 5.2
Annotation Method :: Best-placed RefSeq; Gnomon
Features Annotated :: Gene; mRNA; CDS; ncRNA
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..114364328
/organism="Homo sapiens"
/mol_type="genomic DNA"
/db_xref="taxon:9606"
/chromosome="13"
assembly_gap 1..10000
/estimated_length=10000
/gap_type="telomere"
assembly_gap 10001..16000000
/estimated_length=15990000
/gap_type="short_arm"
centromere 16000001..18051248
/note="Linear centromere model derived predominantly from
reads generated in PMID: 17803354. This region does not
represent an actual centromere sequence, as long-range
ordering of repeats and unmapped WGS contigs is not
provided by the model. For details of model production,
see http://arxiv.org/abs/1307.0035."
:
gene 32315480..32399672
/gene="BRCA2"
/gene_synonym="BRCC2; BROVCA2; FACD; FAD; FAD1; FANCB;
FANCD; FANCD1; GLM3; PNCA2"
/note="breast cancer 2, early onset; Derived by automated
computational analysis using gene prediction method:
BestRefSeq."
/db_xref="GeneID:675"
/db_xref="HGNC:1101"
/db_xref="MIM:600185"
mRNA join(32315480..32315667,32316422..32316527,
32319077..32319325,32325076..32325184,32326101..32326150,
32326242..32326282,32326499..32326613,32329443..32329492,
32330919..32331030,32332272..32333387,32336265..32341196,
32344558..32344653,32346827..32346896,32354861..32355288,
32356428..32356609,32357742..32357929,32362523..32362693,
32363179..32363533,32370402..32370557,32370956..32371100,
32376670..32376791,32379317..32379515,32379750..32379913,
32380007..32380145,32394689..32394933,32396898..32397044,
32398162..32399672)
/gene="BRCA2"
/gene_synonym="BRCC2; BROVCA2; FACD; FAD; FAD1; FANCB;
FANCD; FANCD1; GLM3; PNCA2"
/product="breast cancer 2, early onset"
/inference="similar to RNA sequence, mRNA (same
species):RefSeq:NM_000059.3"
/exception="annotated by transcript or proteomic data"
/note="The RefSeq transcript has 1 substitution compared
to this genomic sequence; Derived by automated
computational analysis using gene prediction method:
BestRefSeq."
/transcript_id="NM_000059.3"
/db_xref="GI:119395733"
/db_xref="GeneID:675"
/db_xref="HGNC:1101"
/db_xref="MIM:600185"
CDS join(32316461..32316527,32319077..32319325,
32325076..32325184,32326101..32326150,32326242..32326282,
32326499..32326613,32329443..32329492,32330919..32331030,
32332272..32333387,32336265..32341196,32344558..32344653,
32346827..32346896,32354861..32355288,32356428..32356609,
32357742..32357929,32362523..32362693,32363179..32363533,
32370402..32370557,32370956..32371100,32376670..32376791,
32379317..32379515,32379750..32379913,32380007..32380145,
32394689..32394933,32396898..32397044,32398162..32398770)
/gene="BRCA2"
/gene_synonym="BRCC2; BROVCA2; FACD; FAD; FAD1; FANCB;
FANCD; FANCD1; GLM3; PNCA2"
/inference="similar to AA sequence (same
species):RefSeq:NP_000050.2"
/exception="annotated by transcript or proteomic data"
/note="The RefSeq protein has 1 substitution compared to
this genomic sequence; Derived by automated computational
analysis using gene prediction method: BestRefSeq."
/codon_start=1
/product="breast cancer type 2 susceptibility protein"
/protein_id="NP_000050.2"
/db_xref="GI:119395734"
/db_xref="CCDS:CCDS9344.1"
/db_xref="GeneID:675"
/db_xref="HGNC:1101"
/db_xref="MIM:600185"
/translation="MPIGSKERPTFFEIFKTRCNKADLGPISLNWFEELSSEAPPYNS
EPAEESEHKNNNYEPNLFKTPQRKPSYNQLASTPIIFKEQGLTLPLYQSPVKELDKFK
LDLGRNVPNSRHKSLRTVKTKMDQADDVSCPLLNSCLSESPVVLQCTHVTPQRDKSVV
CGSLFHTPKFVKGRQTPKHISESLGAEVDPDMSWSSSLATPPTLSSTVLIVRNEEASE
TVFPHDTTANVKSYFSNHDESLKKNDRFIASVTDSENTNQREAASHGFGKTSGNSFKV
NSCKDHIGKSMPNVLEDEVYETVVDTSEEDSFSLCFSKCRTKNLQKVRTSKTRKKIFH
EANADECEKSKNQVKEKYSFVSEVEPNDTDPLDSNVANQKPFESGSDKISKEVVPSLA
CEWSQLTLSGLNGAQMEKIPLLHISSCDQNISEKDLLDTENKRKKDFLTSENSLPRIS
SLPKSEKPLNEETVVNKRDEEQHLESHTDCILAVKQAISGTSPVASSFQGIKKSIFRI
RESPKETFNASFSGHMTDPNFKKETEASESGLEIHTVCSQKEDSLCPNLIDNGSWPAT
TTQNSVALKNAGLISTLKKKTNKFIYAIHDETSYKGKKIPKDQKSELINCSAQFEANA
FEAPLTFANADSGLLHSSVKRSCSQNDSEEPTLSLTSSFGTILRKCSRNETCSNNTVI
SQDLDYKEAKCNKEKLQLFITPEADSLSCLQEGQCENDPKSKKVSDIKEEVLAAACHP
VQHSKVEYSDTDFQSQKSLLYDHENASTLILTPTSKDVLSNLVMISRGKESYKMSDKL
KGNNYESDVELTKNIPMEKNQDVCALNENYKNVELLPPEKYMRVASPSRKVQFNQNTN
LRVIQKNQEETTSISKITVNPDSEELFSDNENNFVFQVANERNNLALGNTKELHETDL
TCVNEPIFKNSTMVLYGDTGDKQATQVSIKKDLVYVLAEENKNSVKQHIKMTLGQDLK
SDISLNIDKIPEKNNDYMNKWAGLLGPISNHSFGGSFRTASNKEIKLSEHNIKKSKMF
FKDIEEQYPTSLACVEIVNTLALDNQKKLSKPQSINTVSAHLQSSVVVSDCKNSHITP
QMLFSKQDFNSNHNLTPSQKAEITELSTILEESGSQFEFTQFRKPSYILQKSTFEVPE
NQMTILKTTSEECRDADLHVIMNAPSIGQVDSSKQFEGTVEIKRKFAGLLKNDCNKSA
SGYLTDENEVGFRGFYSAHGTKLNVSTEALQKAVKLFSDIENISEETSAEVHPISLSS
SKCHDSVVSMFKIENHNDKTVSEKNNKCQLILQNNIEMTTGTFVEEITENYKRNTENE
DNKYTAASRNSHNLEFDGSDSSKNDTVCIHKDETDLLFTDQHNICLKLSGQFMKEGNT
QIKEDLSDLTFLEVAKAQEACHGNTSNKEQLTATKTEQNIKDFETSDTFFQTASGKNI
SVAKESFNKIVNFFDQKPEELHNFSLNSELHSDIRKNKMDILSYEETDIVKHKILKES
VPVGTGNQLVTFQGQPERDEKIKEPTLLGFHTASGKKVKIAKESLDKVKNLFDEKEQG
TSEITSFSHQWAKTLKYREACKDLELACETIEITAAPKCKEMQNSLNNDKNLVSIETV
VPPKLLSDNLCRQTENLKTSKSIFLKVKVHENVEKETAKSPATCYTNQSPYSVIENSA
LAFYTSCSRKTSVSQTSLLEAKKWLREGIFDGQPERINTADYVGNYLYENNSNSTIAE
NDKNHLSEKQDTYLSNSSMSNSYSYHSDEVYNDSGYLSKNKLDSGIEPVLKNVEDQKN
TSFSKVISNVKDANAYPQTVNEDICVEELVTSSSPCKNKNAAIKLSISNSNNFEVGPP
AFRIASGKIVCVSHETIKKVKDIFTDSFSKVIKENNENKSKICQTKIMAGCYEALDDS
EDILHNSLDNDECSTHSHKVFADIQSEEILQHNQNMSGLEKVSKISPCDVSLETSDIC
KCSIGKLHKSVSSANTCGIFSTASGKSVQVSDASLQNARQVFSEIEDSTKQVFSKVLF
KSNEHSDQLTREENTAIRTPEHLISQKGFSYNVVNSSAFSGFSTASGKQVSILESSLH
KVKGVLEEFDLIRTEHSLHYSPTSRQNVSKILPRVDKRNPEHCVNSEMEKTCSKEFKL
SNNLNVEGGSSENNHSIKVSPYLSQFQQDKQQLVLGTKVSLVENIHVLGKEQASPKNV
KMEIGKTETFSDVPVKTNIEVCSTYSKDSENYFETEAVEIAKAFMEDDELTDSKLPSH
ATHSLFTCPENEEMVLSNSRIGKRRGEPLILVGEPSIKRNLLNEFDRIIENQEKSLKA
SKSTPDGTIKDRRLFMHHVSLEPITCVPFRTTKERQEIQNPNFTAPGQEFLSKSHLYE
HLTLEKSSSNLAVSGHPFYQVSATRNEKMRHLITTGRPTKVFVPPFKTKSHFHRVEQC
VRNINLEENRQKQNIDGHGSDDSKNKINDNEIHQFNKNNSNQAAAVTFTKCEEEPLDL
ITSLQNARDIQDMRIKKKQRQRVFPQPGSLYLAKTSTLPRISLKAAVGGQVPSACSHK
QLYTYGVSKHCIKINSKNAESFQFHTEDYFGKESLWTGKGIQLADGGWLIPSNDGKAG
KEEFYRALCDTPGVDPKLISRIWVYNHYRWIIWKLAAMECAFPKEFANRCLSPERVLL
QLKYRYDTEIDRSRRSAIKKIMERDDTAAKTLVLCVSDIISLSANISETSSNKTSSAD
TQKVAIIELTDGWYAVKAQLDPPLLAVLKNGRLTVGQKIILHGAELVGSPDACTPLEA
PESLMLKISANSTRPARWYTKLGFFPDPRPFPLPLSSLFSDGGNVGCVDVIIQRAYPI
QWMEKTSSGLYIFRNEREEEKEAAKYVEAQQKRLEALFTKIQEEFEEHEENTTKPYLP
SRALTRQQVRALQDGAELYEAVKNAADPAYLEGYFSEEQLRALNNHRQMLNDKKQAQI
QLEIRKAMESAEQKEQGLSRDVTTVWKLRIVSYSKKEKDSVILSIWRPSSDLYSLLTE
GKRYRIYHLATSKSKSKSERANIQLAATKKTQYQQLPVSDEILFQIYQPREPLHFSKF
LDPDFQPSCSEVDLIGFVVSVVKKTGLAPFVYLSDECYNLLAIKFWIDLNEDIIKPHM
LIAASNLQWRPESKSGLLTLFAGDFSVFSASPKEGHFQETFNKMKNTVENIDILCNEA
ENKLMHILHANDPKWSTPTKDCTSGPYTAQIIPGTGNKLLMSSPNCEIYYQSPLSLCM
AKRKSVSTPVSAQMTSKSCKGEKEIDDQKNCKKRRALDFLSRLPLPPPVSPICTFVSP
AAQKAFQPPRSCGTKYETPIKKKELNSPQMTPFKKFNEISLLESNSIADEELALINTQ
ALLSGSTGEKQFISVSESTRTAPTSSEDYLRLKRRCTTSLIKEQESSQASTEECEKNK
QDTITTKKYI"
http://togows.org/entry/nucleotide/NC_000013.ttl
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix obo: <http://purl.obolibrary.org/obo/> .
@prefix faldo: <http://biohackathon.org/resource/faldo#> .
@prefix insdc: <http://ddbj.nig.ac.jp/ontologies/sequence/> .
### SO:chromosome
<urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434>
a obo:SO_0000340, obo:SO_0000987 ; # SO:chromosome, SO:linear
rdfs:label "Homo sapiens chromosome 13, GRCh38 Primary Assembly." ;
faldo:location <urn:uuid:d57a11ec-59a9-4d7b-bac7-56b917b743da> ; # Location:1..114364328
insdc:chromosome 13 ; # (should be a string literal e.g., "X"?)
insdc:dblink <urn:uuid:79037198-5ab5-47f7-b7b1-591240b6f77a> ; # BioProject:PRJNA168
insdc:mol_type "genomic DNA" ;
insdc:organism "Homo sapiens" ; # (should be a taxonomy URI?)
insdc:sequence_date "2014-02-03"^^xsd:date ;
insdc:sequence_fasta <http://togows.org/entry/nucleotide/NC_000013.11.fasta> ; # (should point to RefSeq entry?)
insdc:sequence_length 114364328 ;
insdc:sequence_version "NC_000013.11" ;
rdfs:seeAlso <http://identifiers.org/ncbigi/GI:568815585>, <http://identifiers.org/pubmed/11237011>, <http://identifiers.org/pubmed/15057823>, <http://identifiers.org/pubmed/15496913>, <http://identifiers.org/refseq/NC_000013.11>, <http://identifiers.org/taxonomy/9606> .
<urn:uuid:79037198-5ab5-47f7-b7b1-591240b6f77a>
rdfs:label "PRJNA168" ;
rdfs:seeAlso <http://identifiers.org/bioproject/PRJNA168> .
<urn:uuid:d57a11ec-59a9-4d7b-bac7-56b917b743da>
faldo:begin <urn:uuid:4c69e38f-9d53-4878-9e1c-c37feda387ae> ;
faldo:end <urn:uuid:84873470-b28a-4859-991d-607f0556a73b> ;
insdc:location "1..114364328" ;
a faldo:Region .
<urn:uuid:4c69e38f-9d53-4878-9e1c-c37feda387ae>
faldo:position 1 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
<urn:uuid:84873470-b28a-4859-991d-607f0556a73b>
faldo:position 114364328 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
### SO:gene
<urn:uuid:111eaf02-aef0-447d-86d3-d08c9503d21a>
a obo:SO_0000704 ; # SO:gene
rdfs:label "BRCA2" ;
faldo:location <urn:uuid:1fae3244-d357-4d88-8aae-5a85c2f3420d> ;
insdc:gene "BRCA2" ;
insdc:gene_synonym "BRCC2; BROVCA2; FACD; FAD; FAD1; FANCB; FANCD; FANCD1; GLM3; PNCA2" ;
insdc:note "breast cancer 2, early onset; Derived by automated computational analysis using gene prediction method: BestRefSeq." ;
obo:so_part_of <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ; # SO:chromosome
rdfs:seeAlso <http://identifiers.org/hgnc/1101>, <http://identifiers.org/ncbigene/675>, <http://identifiers.org/omim/600185> .
<urn:uuid:1fae3244-d357-4d88-8aae-5a85c2f3420d>
faldo:begin <urn:uuid:285d883a-6b42-498b-b7c1-bc9d27a4244a> ;
faldo:end <urn:uuid:f0d81998-eccd-4166-88bb-09db666da8be> ;
insdc:location "32315480..32399672" ;
a faldo:Region .
<urn:uuid:285d883a-6b42-498b-b7c1-bc9d27a4244a>
faldo:position 32315480 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
<urn:uuid:f0d81998-eccd-4166-88bb-09db666da8be>
faldo:position 32399672 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
### SO:mRNA
<urn:uuid:30fc864c-a0f2-4a74-b7bc-551f46c9ae9b>
a obo:SO_0000234 ; # SO:mRNA
rdfs:label "BRCA2" ;
faldo:location <urn:uuid:e156c6ed-a986-45b3-975b-70756aa702cb> ;
insdc:exception "annotated by transcript or proteomic data" ;
insdc:gene "BRCA2" ;
insdc:gene_synonym "BRCC2; BROVCA2; FACD; FAD; FAD1; FANCB; FANCD; FANCD1; GLM3; PNCA2" ;
insdc:inference "similar to RNA sequence, mRNA (same species):RefSeq:NM_000059.3" ;
insdc:note "The RefSeq transcript has 1 substitution compared to this genomic sequence; Derived by automated computational analysis using gene prediction method: BestRefSeq." ;
insdc:product "breast cancer 2, early onset" ;
insdc:transcript_id "NM_000059.3" ;
obo:so_has_part (<urn:uuid:4f5eba89-d098-4cbe-97e3-ed449424a659>
<urn:uuid:c1a4ee53-bf08-475d-ba23-f725b066f2bf>
<urn:uuid:edd45122-ebf5-4fc9-8b06-da352446d28d>
<urn:uuid:62294db5-6d1d-48bb-82bf-273e93b8edfb>
<urn:uuid:b0e0f008-8fef-4000-ad9f-e243e2d4578c>
<urn:uuid:be04dc41-8f5b-4f4e-ae25-2d8c69521448>
<urn:uuid:36749a62-99b8-4d4c-a179-7a6ddf290c8d>
<urn:uuid:34d1c841-5f36-4829-9585-66f881e64951>
<urn:uuid:72b59757-3bef-44a0-bac2-dbd6b4731029>
<urn:uuid:a7e8046a-9f7e-4085-92db-e85d984b5c62>
<urn:uuid:8dc07828-fef7-4bbe-998b-f9fdf3f337d5>
<urn:uuid:669ade82-aee3-4503-91a6-a970b788f0f3>
<urn:uuid:15bf32d9-2c9f-48c2-9435-94f71c1edc5a>
<urn:uuid:df42ef2c-15eb-49d7-8a17-c1cc35f9ff5d>
<urn:uuid:9c04bf8a-b443-4a95-83b3-16c31edc96da>
<urn:uuid:e11809d3-9a77-4d7f-9a59-28ba38ebb4d8>
<urn:uuid:6bdf18b7-5030-4885-a039-66b83fe3da6c>
<urn:uuid:f7575eb1-a72c-4b90-8dc5-e6ce8b848efd>
<urn:uuid:8949a9d9-1fdc-4598-8678-ee17597964ef>
<urn:uuid:e33e4111-9f20-4eaa-b313-d424b718d685>
<urn:uuid:801bef0e-91ca-4aa6-b80f-cd9240b6209e>
<urn:uuid:66fec543-b9ef-419f-867d-16131bf700e3>
<urn:uuid:eddd68f4-80ab-4e53-bbff-f5b872c92218>
<urn:uuid:e709c5a8-ff8d-46f3-bf42-6ba2613acbb7>
<urn:uuid:11e61c32-4d79-456f-aedb-1b0a98dcfea1>
<urn:uuid:20008d49-bbca-41a4-8c38-91041734e6bd>
<urn:uuid:dc12e0b0-f45d-4154-a126-bea8006767ce>
) ;
obo:so_part_of <urn:uuid:111eaf02-aef0-447d-86d3-d08c9503d21a> ; # SO:gene
rdfs:seeAlso <http://identifiers.org/hgnc/1101>, <http://identifiers.org/ncbigene/675>, <http://identifiers.org/ncbigi/GI:119395733>, <http://identifiers.org/omim/600185> .
<urn:uuid:e156c6ed-a986-45b3-975b-70756aa702cb>
faldo:begin <urn:uuid:70b063b5-adc4-46f0-b218-5371c6c15b7f> ;
faldo:end <urn:uuid:649ee5cf-3740-421f-9ad5-8b33587e23fe> ;
insdc:location "join(32315480..32315667,32316422..32316527,32319077..32319325,32325076..32325184,32326101..32326150,32326242..32326282,32326499..32326613,32329443..32329492,32330919..32331030,32332272..32333387,32336265..32341196,32344558..32344653,32346827..32346896,32354861..32355288,32356428..32356609,32357742..32357929,32362523..32362693,32363179..32363533,32370402..32370557,32370956..32371100,32376670..32376791,32379317..32379515,32379750..32379913,32380007..32380145,32394689..32394933,32396898..32397044,32398162..32399672)" ;
a faldo:Region .
<urn:uuid:70b063b5-adc4-46f0-b218-5371c6c15b7f>
faldo:position 32315480 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
<urn:uuid:649ee5cf-3740-421f-9ad5-8b33587e23fe>
faldo:position 32399672 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
### SO:CDS
<urn:uuid:7c341d83-ac71-4651-b216-7cca60d080b9>
a obo:SO_0000316 ; # SO:CDS
rdfs:label "BRCA2" ;
faldo:location <urn:uuid:c105c69f-62ea-4f10-93c4-f4effaa36a47> ;
insdc:codon_start 1 ;
insdc:exception "annotated by transcript or proteomic data" ;
insdc:gene "BRCA2" ;
insdc:gene_synonym "BRCC2; BROVCA2; FACD; FAD; FAD1; FANCB; FANCD; FANCD1; GLM3; PNCA2" ;
insdc:inference "similar to AA sequence (same species):RefSeq:NP_000050.2" ;
insdc:note "The RefSeq protein has 1 substitution compared to this genomic sequence; Derived by automated computational analysis using gene prediction method: BestRefSeq." ;
insdc:product "breast cancer type 2 susceptibility protein" ;
insdc:translation "MPIGSKERPTFFEIFKTRCNKADLGPISLNWFEELSSEAPPYNSEPAEESEHKNNNYEPNLFKTPQRKPSYNQLASTPIIFKEQGLTLPLYQSPVKELDKFKLDLGRNVPNSRHKSLRTVKTKMDQADDVSCPLLNSCLSESPVVLQCTHVTPQRDKSVVCGSLFHTPKFVKGRQTPKHISESLGAEVDPDMSWSSSLATPPTLSSTVLIVRNEEASETVFPHDTTANVKSYFSNHDESLKKNDRFIASVTDSENTNQREAASHGFGKTSGNSFKVNSCKDHIGKSMPNVLEDEVYETVVDTSEEDSFSLCFSKCRTKNLQKVRTSKTRKKIFHEANADECEKSKNQVKEKYSFVSEVEPNDTDPLDSNVANQKPFESGSDKISKEVVPSLACEWSQLTLSGLNGAQMEKIPLLHISSCDQNISEKDLLDTENKRKKDFLTSENSLPRISSLPKSEKPLNEETVVNKRDEEQHLESHTDCILAVKQAISGTSPVASSFQGIKKSIFRIRESPKETFNASFSGHMTDPNFKKETEASESGLEIHTVCSQKEDSLCPNLIDNGSWPATTTQNSVALKNAGLISTLKKKTNKFIYAIHDETSYKGKKIPKDQKSELINCSAQFEANAFEAPLTFANADSGLLHSSVKRSCSQNDSEEPTLSLTSSFGTILRKCSRNETCSNNTVISQDLDYKEAKCNKEKLQLFITPEADSLSCLQEGQCENDPKSKKVSDIKEEVLAAACHPVQHSKVEYSDTDFQSQKSLLYDHENASTLILTPTSKDVLSNLVMISRGKESYKMSDKLKGNNYESDVELTKNIPMEKNQDVCALNENYKNVELLPPEKYMRVASPSRKVQFNQNTNLRVIQKNQEETTSISKITVNPDSEELFSDNENNFVFQVANERNNLALGNTKELHETDLTCVNEPIFKNSTMVLYGDTGDKQATQVSIKKDLVYVLAEENKNSVKQHIKMTLGQDLKSDISLNIDKIPEKNNDYMNKWAGLLGPISNHSFGGSFRTASNKEIKLSEHNIKKSKMFFKDIEEQYPTSLACVEIVNTLALDNQKKLSKPQSINTVSAHLQSSVVVSDCKNSHITPQMLFSKQDFNSNHNLTPSQKAEITELSTILEESGSQFEFTQFRKPSYILQKSTFEVPENQMTILKTTSEECRDADLHVIMNAPSIGQVDSSKQFEGTVEIKRKFAGLLKNDCNKSASGYLTDENEVGFRGFYSAHGTKLNVSTEALQKAVKLFSDIENISEETSAEVHPISLSSSKCHDSVVSMFKIENHNDKTVSEKNNKCQLILQNNIEMTTGTFVEEITENYKRNTENEDNKYTAASRNSHNLEFDGSDSSKNDTVCIHKDETDLLFTDQHNICLKLSGQFMKEGNTQIKEDLSDLTFLEVAKAQEACHGNTSNKEQLTATKTEQNIKDFETSDTFFQTASGKNISVAKESFNKIVNFFDQKPEELHNFSLNSELHSDIRKNKMDILSYEETDIVKHKILKESVPVGTGNQLVTFQGQPERDEKIKEPTLLGFHTASGKKVKIAKESLDKVKNLFDEKEQGTSEITSFSHQWAKTLKYREACKDLELACETIEITAAPKCKEMQNSLNNDKNLVSIETVVPPKLLSDNLCRQTENLKTSKSIFLKVKVHENVEKETAKSPATCYTNQSPYSVIENSALAFYTSCSRKTSVSQTSLLEAKKWLREGIFDGQPERINTADYVGNYLYENNSNSTIAENDKNHLSEKQDTYLSNSSMSNSYSYHSDEVYNDSGYLSKNKLDSGIEPVLKNVEDQKNTSFSKVISNVKDANAYPQTVNEDICVEELVTSSSPCKNKNAAIKLSISNSNNFEVGPPAFRIASGKIVCVSHETIKKVKDIFTDSFSKVIKENNENKSKICQTKIMAGCYEALDDSEDILHNSLDNDECSTHSHKVFADIQSEEILQHNQNMSGLEKVSKISPCDVSLETSDICKCSIGKLHKSVSSANTCGIFSTASGKSVQVSDASLQNARQVFSEIEDSTKQVFSKVLFKSNEHSDQLTREENTAIRTPEHLISQKGFSYNVVNSSAFSGFSTASGKQVSILESSLHKVKGVLEEFDLIRTEHSLHYSPTSRQNVSKILPRVDKRNPEHCVNSEMEKTCSKEFKLSNNLNVEGGSSENNHSIKVSPYLSQFQQDKQQLVLGTKVSLVENIHVLGKEQASPKNVKMEIGKTETFSDVPVKTNIEVCSTYSKDSENYFETEAVEIAKAFMEDDELTDSKLPSHATHSLFTCPENEEMVLSNSRIGKRRGEPLILVGEPSIKRNLLNEFDRIIENQEKSLKASKSTPDGTIKDRRLFMHHVSLEPITCVPFRTTKERQEIQNPNFTAPGQEFLSKSHLYEHLTLEKSSSNLAVSGHPFYQVSATRNEKMRHLITTGRPTKVFVPPFKTKSHFHRVEQCVRNINLEENRQKQNIDGHGSDDSKNKINDNEIHQFNKNNSNQAAAVTFTKCEEEPLDLITSLQNARDIQDMRIKKKQRQRVFPQPGSLYLAKTSTLPRISLKAAVGGQVPSACSHKQLYTYGVSKHCIKINSKNAESFQFHTEDYFGKESLWTGKGIQLADGGWLIPSNDGKAGKEEFYRALCDTPGVDPKLISRIWVYNHYRWIIWKLAAMECAFPKEFANRCLSPERVLLQLKYRYDTEIDRSRRSAIKKIMERDDTAAKTLVLCVSDIISLSANISETSSNKTSSADTQKVAIIELTDGWYAVKAQLDPPLLAVLKNGRLTVGQKIILHGAELVGSPDACTPLEAPESLMLKISANSTRPARWYTKLGFFPDPRPFPLPLSSLFSDGGNVGCVDVIIQRAYPIQWMEKTSSGLYIFRNEREEEKEAAKYVEAQQKRLEALFTKIQEEFEEHEENTTKPYLPSRALTRQQVRALQDGAELYEAVKNAADPAYLEGYFSEEQLRALNNHRQMLNDKKQAQIQLEIRKAMESAEQKEQGLSRDVTTVWKLRIVSYSKKEKDSVILSIWRPSSDLYSLLTEGKRYRIYHLATSKSKSKSERANIQLAATKKTQYQQLPVSDEILFQIYQPREPLHFSKFLDPDFQPSCSEVDLIGFVVSVVKKTGLAPFVYLSDECYNLLAIKFWIDLNEDIIKPHMLIAASNLQWRPESKSGLLTLFAGDFSVFSASPKEGHFQETFNKMKNTVENIDILCNEAENKLMHILHANDPKWSTPTKDCTSGPYTAQIIPGTGNKLLMSSPNCEIYYQSPLSLCMAKRKSVSTPVSAQMTSKSCKGEKEIDDQKNCKKRRALDFLSRLPLPPPVSPICTFVSPAAQKAFQPPRSCGTKYETPIKKKELNSPQMTPFKKFNEISLLESNSIADEELALINTQALLSGSTGEKQFISVSESTRTAPTSSEDYLRLKRRCTTSLIKEQESSQASTEECEKNKQDTITTKKYI" ;
obo:so_has_part (<urn:uuid:a105e0f2-c7dd-47d5-b9cf-9afb85cc48b7>
<urn:uuid:cec5f214-f49b-4226-b560-f08dcf06b2e5>
<urn:uuid:a27fe315-b4ae-4b6c-8533-06c729cbc377>
<urn:uuid:f2931c4a-3224-4483-ae08-4edcf79a9a90>
<urn:uuid:baa6a449-214e-40f5-bb83-a0daa76a3dd6>
<urn:uuid:9cf9294f-e183-4d06-8420-589c9feea2a5>
<urn:uuid:b1f09a10-efb2-42f6-83fd-9e58bcf9d31e>
<urn:uuid:3043988a-9dc5-4a4f-9d30-a6bd1d59aa0d>
<urn:uuid:ce41afc0-303d-4a91-8e2c-47d626802a5e>
<urn:uuid:26f2d784-bd23-4459-8c90-7b7d1c3aee63>
<urn:uuid:80c4e39a-64b1-4a14-bd80-87bb1fccec17>
<urn:uuid:6dcac1b5-f589-42c0-9732-62d3652570f7>
<urn:uuid:94da7ade-8b1b-40eb-8fe9-49c6da70aefc>
<urn:uuid:7cf1088f-575c-4cf6-beec-7851f251bef6>
<urn:uuid:c2db2956-b989-448e-85a0-183d166934c6>
<urn:uuid:03e74f9d-badb-4706-97a0-d286f80a97f0>
<urn:uuid:7512ba7b-afac-4081-98e7-dd2d49884be7>
<urn:uuid:1cf56c3b-8dce-41c7-95df-717c0e1527ec>
<urn:uuid:29931521-3c11-4784-b4b9-ef5b1775c7f7>
<urn:uuid:7bf26190-4c22-459f-a879-3cfc99c4cccc>
<urn:uuid:a8bf2410-d7fa-4797-9ed9-a80a7b02b757>
<urn:uuid:1658fdfc-2b2a-4fdb-9973-797e220cee71>
<urn:uuid:a2330f3d-f608-42b6-aebe-998e5f47b745>
<urn:uuid:c3fc0d32-c4e4-4639-adaa-2ba461dbf0a5>
<urn:uuid:5d0899e9-418f-40c8-90a3-c65332de1e98>
<urn:uuid:93419b50-ee11-4f57-a6c9-2781970dc21e>
) ;
obo:so_part_of <urn:uuid:111eaf02-aef0-447d-86d3-d08c9503d21a> ; # SO:gene (-> SO:mRNA? and share the same exon URIs?)
rdfs:seeAlso <http://identifiers.org/ccds/CCDS9344.1>, <http://identifiers.org/hgnc/1101>, <http://identifiers.org/ncbigene/675>, <http://identifiers.org/ncbigi/GI:119395734>, <http://identifiers.org/ncbiprotein/NP_000050.2>, <http://identifiers.org/omim/600185> .
<urn:uuid:c105c69f-62ea-4f10-93c4-f4effaa36a47>
faldo:begin <urn:uuid:7abb9350-b799-46d4-8b05-5fc0dbc9e00c> ;
faldo:end <urn:uuid:b01bb356-b63d-4f82-ad40-13dbd377f565> ;
insdc:location "join(32316461..32316527,32319077..32319325,32325076..32325184,32326101..32326150,32326242..32326282,32326499..32326613,32329443..32329492,32330919..32331030,32332272..32333387,32336265..32341196,32344558..32344653,32346827..32346896,32354861..32355288,32356428..32356609,32357742..32357929,32362523..32362693,32363179..32363533,32370402..32370557,32370956..32371100,32376670..32376791,32379317..32379515,32379750..32379913,32380007..32380145,32394689..32394933,32396898..32397044,32398162..32398770)" ;
a faldo:Region .
<urn:uuid:7abb9350-b799-46d4-8b05-5fc0dbc9e00c>
faldo:position 32316461 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
<urn:uuid:b01bb356-b63d-4f82-ad40-13dbd377f565>
faldo:position 32398770 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
### SO:exon
<urn:uuid:a105e0f2-c7dd-47d5-b9cf-9afb85cc48b7>
faldo:begin <urn:uuid:dbcbaadd-407e-4590-932e-2ca5a21e1c9e> ;
faldo:end <urn:uuid:a81cb138-96a0-458c-b963-cd5b4af0fd01> ;
obo:so_part_of <urn:uuid:c105c69f-62ea-4f10-93c4-f4effaa36a47> ;
a faldo:Region, obo:SO_0000147 . # SO:exon
:
<urn:uuid:93419b50-ee11-4f57-a6c9-2781970dc21e>
faldo:begin <urn:uuid:90c43947-789e-4c39-a502-357e539fa71e> ;
faldo:end <urn:uuid:200030b9-8545-4f0a-bf58-c99f4d76c3fe> ;
obo:so_part_of <urn:uuid:c105c69f-62ea-4f10-93c4-f4effaa36a47> ;
a faldo:Region, obo:SO_0000147 . # SO:exon
<urn:uuid:90c43947-789e-4c39-a502-357e539fa71e>
faldo:position 32398162 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
<urn:uuid:200030b9-8545-4f0a-bf58-c99f4d76c3fe>
faldo:position 32398770 ;
faldo:reference <urn:uuid:02856d67-76b5-4ac3-8cb2-906a70cf4434> ;
a faldo:ExactPosition, faldo:ForwardStrandPosition .
http://togows.org/entry/nucleotide/NC_000013.gff
TBA