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5-DNAtoPTN.py
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5-DNAtoPTN.py
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import os
def translate(seq):
table = {
'ATA':'I', 'ATC':'I', 'ATT':'I', 'ATG':'M',
'ACA':'T', 'ACC':'T', 'ACG':'T', 'ACT':'T',
'AAC':'N', 'AAT':'N', 'AAA':'K', 'AAG':'K',
'AGC':'S', 'AGT':'S', 'AGA':'R', 'AGG':'R',
'CTA':'L', 'CTC':'L', 'CTG':'L', 'CTT':'L',
'CCA':'P', 'CCC':'P', 'CCG':'P', 'CCT':'P',
'CAC':'H', 'CAT':'H', 'CAA':'Q', 'CAG':'Q',
'CGA':'R', 'CGC':'R', 'CGG':'R', 'CGT':'R',
'GTA':'V', 'GTC':'V', 'GTG':'V', 'GTT':'V',
'GCA':'A', 'GCC':'A', 'GCG':'A', 'GCT':'A',
'GAC':'D', 'GAT':'D', 'GAA':'E', 'GAG':'E',
'GGA':'G', 'GGC':'G', 'GGG':'G', 'GGT':'G',
'TCA':'S', 'TCC':'S', 'TCG':'S', 'TCT':'S',
'TTC':'F', 'TTT':'F', 'TTA':'L', 'TTG':'L',
'TAC':'Y', 'TAT':'Y', 'TAA':'*', 'TAG':'*',
'TGC':'C', 'TGT':'C', 'TGA':'*', 'TGG':'W',
}
protein = ""
if len(seq) % 3 == 0:
for i in range(0, len(seq), 3):
codon = seq[i:i + 3]
protein += table[codon]
return protein
seq_dic = {}
arquivo = open("12864_2017_3579_MOESM18_ESM_NoStopCodon.fasta", "r")
for line in arquivo:
line = line.rstrip()
if line.startswith(">"):
key_name = line[1:]
seq_dic[key_name] = ""
else:
seq_dic[key_name] = seq_dic[key_name] + line
arquivo.close()
arquivo_ptn = open("12864_2017_3579_MOESM18_ESM_PTN.fasta", "w")
for key, value in seq_dic.items():
arquivo_ptn.write(">" + str(key) + "\n" + str(translate(value)) + "\n")
arquivo_ptn.close()