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Description: repository for the code featured in the blog
Homepage: http://python.genedrift.org
Clone URL: git://github.com/nuin/beginning-python-for-bioinformatics.git
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100644 30 lines (28 sloc) 1.198 kb
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def translate_dna(sequence):
 
    #dictionary with the genetic code
    gencode = {
    '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',
    }
    
    proteinseq = ''
    #loop to read DNA sequence in codons, 3 nucleotides at a time
    for n in range(0,len(sequence),3):
        #checking to see if the dictionary has the key
        if gencode.has_key(sequence[n:n+3]) == True:
            proteinseq += gencode[sequence[n:n+3]]
    #return protein sequence
    return proteinseq