def test_get_introns(self):
XKR8_uid = get_all_transcripts("XKR8",
"grch38")[0]["qualifiers"]["uid"]
transcript = Transcript(XKR8_uid, "grch38")
introns = transcript.get_introns()
intron_seq = transcript.get_seq_from_pos(introns)
self.assertEqual(
intron_seq,
"GTGAGTGCTTCGCCCCGGGAGGGGAGGAGTGTCGGAGCCCAGCACCTCCGTCAGCTGGGTCACCTGTACAGGTGACACGCCATATGCCGGGAAGGGGACTGGGAGAGGGAACCAAGTCCTGTGGGCGCCTGGCCTACAGGTGAGCGTGCAGCCCTTTACGGAAAGGGAATCCCGGTAGACTGCCTTCATTCTAGCCCTAGCTTTCCTGGCACAGGCGAAGAAACTGAGGCCCAGGGAAGAAAGGGAGGCGCATGGGCTTTGAAGTCGGACCTCTCAGGGATCCACTTCTGGCTTTGCCCCCTCTCGCCTCACTTCTGCATTTCTCTGAGCCTCAGTTTCCTCCTGCGTAGAAAGGAGGTAGTCACCCTGAGACAGGTGTGACGGGCAGGCCTGTTGTGAAGAGTGAGCGAAAGAATGAGAAAGTGCCTCGCACAGTGCCTGGCCTGTAATGGCAGGGGCTGCGGACTCAGTTCAGCATCCCATGTTTCAGCATGGGCAGGGCCTTGGGAAGTCACTGACCTCTCAGTGGGGCTGTTTGGTTGCTGTTCCCATTGGGATGGGGATAGCGCCTGCCCGTTTGGTGAAGATGCAGTGAAATGACATCTGTCCACTGCCCTGGCTCAGAGTGAGCACTCAGCAACCTCAGCTGGCTTCTTGACCTGGGCCTCCCTGGGAGTTTCAGCAGCCCTGACCCCACCACAGCGCTTGCCCCTCACAAAGGCCGCCTCTCACCCTGTCTGCCTGGTTGTATTCTTCCCCCTGAAACTTGGCTTCCCACCCCAGACCCAGCAAGAGGGCAGAGATGGCCTCTGACTCATCCATGCCCATGGAGCCAGCCAGGGCTGGGCATAGGCTGGGTCCTGGAAAATGTGTGTGGATTCTGCTCCTTTTTGGACCTGGTGGAGCCTCGTAGAGATGGGAAAACAAACCCAAGGCTCAGAGGCATGCGACAAAGTCAGGGCAGAGGGTGGTGTGGGTTGGGATGGGGTGGCCAGGGCCAGGATCTGCTCTTGAATCCGTTTTTACAAACTCTTGAGATCTGGCCTTGACAAAGCCACACGGAGTCTCCAGGAGTGGAAGAGAGGAGCTTTGAATGTGGCAGTTTTGCCTGAGGGATTATAGAGACATCAGAAAACCCCGGGTGGGCATGAAGGGGTGCAGTTGTTAAGTCCTGGGCAGGCCTCCATGAGCCGTGAATCTGTAACTACCTTATGCATCTTTGTGGCCAATATTTCTGCTGAGCTTGAGTCAGACAGACTGTACTAGCTTTGGCTTTGGAAATGGGTCTCTGTTCCTGCCTGTGAATTGGCCGAGGCAGGGGTCCCTGCTAGGTCACTGGGGACCATAGGCAAAGGCTCCTGCTGAGGGAGAACCCCAGCCTGTCCTGCCTGCCTGCTCCTCAGTGTGTTCTTGTGTCCTTCCAGGGGAAGTGACAGTACATGTCTGGTGAATGAGCTTGTGATGAGTGAACGGGGTTCTCTCCCAATAGGCAACTGAGAGCAAAGTTCTGGGTGGAGGGTCCTTGGTGCATCCTCCACTTACTCTTCATGCCAGTGGGTACCCCAGACCTGTCTGTCCAAACTCTGGACTCTCTTAACTCCGCCCCAATCTCCATCCTTAACCACTCAGGGCCAGCCTCTTAAATGGGATCCCTCCTTCCAATCTAACCCTCCTCCAGCCCCTCCCCTGTGTGGCCGGGGCAAGGCAGAGTCTGATTCCATCTGGCCTGTGCCCAGAAGTGCCCAAGAGGCAAATGTCCTCTTGCCCACAGGACCCCAGGAGATCTTGGGCACACTAAAGTTTGAGAACTACTGCCTCAGGCAACTTTATAGCATGCCTTTCCAATTCAGGTTTGGATCCAAATCCTCATTCCAGTACTTATTAGCTGCTTATAATTTTTTGTTTGTTTTTTAAAAAGAGGTAGGGTCTGGTCAGGCTTGGTGGCTCATGCCTGTAATCCTAGCAGTCTGGGAGGCTGACGTGGGTGGATCACTTGAGGTCAGGAGTTTGAGACCAGCCTGCTGAACATGGCAAAAGCTCATCTCTACAAAAATTAGCCAGGTGTGGTGGCGCATGCCTGTAATCCCAGCATCCCAGCTACTCTGGAGGCCGAGGCAGGAGAATCGCTTGAACCTGGGAGGTGGAGGTTGCAGTGAGCCGAGTTTGTGCCACTGCACTCTAGCCTGGGCGACAAGCGACAGATGTAGACTCTGTCTCCAAAAAAAAAGAAAAAAAAAAAGAGAGAGAGAGGCAGGGTCTCTGTTGCCTGGGCTGGAGTGCAGTGGCACAATCAATCATGGCTCACAGTGGCCTTGAACTCCTGGGCTCAAGCTGTCCTCCTGCGTCAGCCTCCTGAGTAGCTTGGACTACAGGCTTGTACCACCACGTCCAACTAATTAAAAAAAATTCTTTGTAGAGATGGGGCTTGCTGTGTTGCCCAGGGTGGTCTCAAACTCCTGGCCTCCAGTGATCCTCTTGCCTTGGCCTGTCAAAATGTTGGGATTACAGGCGCGAGCCACTGCACCCAGACCTTATTAGCTTCTTGATCCTGTTTCCCCATCTGTAAAATGGGCTTTTGTGAGAAGTAAACAGGACAAGGTTTGTGATGAGCTTGGGACAGTGCTTAGCCAGCGGGAGTAGAAGGTGTATTGATCCCCATTTTTGCTTTTTTGTTTTTTTTGAGACGGAGTCTTGTTCTGTCGCCAGGCTGGAGTGCAGTGGCACGATCTCGGCTCACTGTAACCTCCGCCTTGCAGATTCAAGAGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCGCACCACCACACCCAGCTAATTTTTTGTATTAGTAGAGACGAGGCTTCACCATGTTAGCCAGGATGGTCTCAATCTCCTGAACTCGTGATCAGCCCGCCTCAGACTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCACACCCGGCCTCGATCCTCATTTTACAGATGAAACAAGTTCAGTGAGGTTAGGACATTGCCGAAGGCCCCATAGCATGGATGTGAGGAGACAGGTTGGAGCCTGTGTCCACTCATTAGATGGGTGGGAGGCTGAGGAATTCACAGGACACTAACCTGGCCCTCTGGGCATTTGTGTGTGGTGCCTAGGTGAGTGAAGGCCTGTGGCTGGCCCCCCTGTCGTGGCTTGGTGGGGGGTCTCTCAAATGTTGGAACTGTTTTTAGTCTTTTATAAAGGCTGCTTAGAAAACAGGAGAACAGGCTTTAGTCAGGCAGATCTGGCTTGAAACCTAAAGTCACTCTACAGCTGTTTGAGTTTGGACAAATGCCTTGACCTCTCTGAGTATGTTTGTTCTCATCTGAAATATGGGCTTAAATCCTCCTGCCTCATAAGGTTGATGAAAGGATTAAATGAGGTGATGCAAAGAAAGCCCATTTCCTGGTACATAAGTTCCTGGTACAGAGTCTCACTCTGTCATCGCCCGTAGTGGAGTACAGCAGCCTGATCATGGCTCACTGTAGCCTCCACCTCCCAGGCTCAAGTGATCCTCCTGTCTCAGCCTCCTGAGTAGCTGGGACTACAAGTGTGTATCACCATGCTGGCTAATTTTTCTTTCTTTTTTTTTTTTTTTTTTTTGTAGAGACGAGGTCCCACTTTGTTACCCAGGCTGGTCTTGAACTCCTGAGCTCAAGTAACCTCCTACCTCAGCCTCCTAAGGTGCTGGGATTACAGGTGTCGCCCACTGTGCCTGGCCCACAAGTCTTAATTGTAATTTTTATAATTTTGAAGATAATGAAGTGTGTAAGGTGCCTGATACAGCATAGGTAACTTTTTAGTTAAGAAACAATTTCATACGTTGGGAGGCCAAGGTGCACAGGTCGCTTGAGGCCAGAGTTGGAGACCATCCTGGGTAACATAGTGAGACCTCATCTCTTCAAAATTTTAAAAGAGAAACAAGAAACAATATATTGAATGCCTTCATCCAGTCAGGTTTTCATTGTGCATCTCTTCTGTGCCTGTTACTGTGCTGGGGACACAGCAGTGAACAAGATGAACCCAGCCCCTGCCCTGCCAGGATGATAGACTAAAACAAGTAGCTACGGTTGAGTGACTGGAAAAGGGAGAGGCAGGGAGCAGAGGATCACAGGGCCCCCTAAGCATGGGTGAAGTTTACAGTGAGGAGCTTTGGGAGGGTTTTTGCATGAAAGGAAAGTGACTTGCCCATTTCCACAGACCTGGACAGTGGCCAAGCTAAAGAGGGCCCCCACTCACATCCGACTCAGGGTCCAAGCCTTCCCCTTTGCCTTCCTCCACCGCTGCCATAAATGCCACAGCCTCTCAAGAAACCAGTCCTCACTCTACCGTCACTCGCTGTGTGACCTGGAGAGCCTTCCTGTGGAAGATGGAGGTTGGACTCGATCTCCAAGGGCCCTTTCGTCTTGCTAGTCTGAGTCTATATATTGATTGAAAAAACAATAATAGCGGCTGTCACAATCGAGTGCCAGCTATTAGCCAGGCCCTGTGGGAAGCACTTACAGTCATCATTGCTCATGTTCACAGCAGCCCTGTAGGTTTGTGCTATATTGATCTTCATTTTTAAAGAGGTGCAGAAAGGTGAGTGACTTGCCCTGGGTTACTGGGCACTCACTGGGCACACGTCTTTGTCTGTTGAGGGTTGGGGGTGTCTAGAACCAGGGCCAAGTGCAGACAGTCTGCACTGTGAGTGTGGCAGGGGGTAAGGGGGCGAGACAGATTTTCCCTACTTTTTATTTAGCAAACATCTCTTTCGCTGCTGTTATGTGCCAGGTACTGGGCTGCTGGGGGATCCCAAGTGAGCAGAGTCTGTTTTCTACCCTCGAGGAGCCCAGAGATAAGGAAATAGATAATTACTGTGTGATGAGACTCCAGACAGAGGTGGGTGGCATGTTACAGGGATACCTGACACAGCTGAGTGGGTGGCATGGGGTCAGGGTGGGTGACTCCCGGGGCTCTTCAAGCTGGGGCCTGCGGGGTAATGGAGGAGTAGGCCGGGGAAGTGGGGCCTGTGCTTCTGGCGACCTAACATCCTGGGCAGAGCTTGTCAAGGTCACGGAAGGTGGCATGCTGGGCAAACTGGAAGAACATCAGCCCTGCTGAGACCTGGGCAAGGCTAATGAGCACAGATCTGTTTCCAGGCTAGGAGTGGGTTCTGGGCGCCTAATAGGTTCCCAGTAAACATCTGTCGAATGACTGCGGTGGACGGGGACAGGGGAGGAAGCAGTCGGGAGACGTGCCGGTGCCACTTCCATCCCTCCCTGGAGGCCCTTGTGCTTCTGCTCCAGGATTGGCAACCAGGAGGTGGGATAGGACCCCTGTTGTAAACTTCTGGATCTTGGAAAATCAAGGTTAGGGGTCAGTCCGATGGCCTCTGGTCTTGGAGGGGAGGGGAGGGGAGTGGGGAGACCTTCTGTCCACACAGCAGGGACATCTCTCCTGGCCCTGAGGGCAGCTTTAGCCAGAGCCTGTTGCCACCCCATGGGATTTTCTACTCCCTTTTTGAGACTAAGAAAGACGGAACTGAGACTGTTGATTTTTAGACACAAGGAAGGCTTGTGTTCTTCCCAGAAAGAAAGGGTTATGGGGCCCTGGAAGATGCCCAGGATGCAGCCAAGGCCCAGGGGTGCTGAGTGCTGGGTGGGCCACAGGTCACATCCTCTCATCTTTGACAAATACCACCCGGATAGCACCTACGCAGCAAAGCGCTGTGGTGAGGGGCAGGCTCTATATTAGGAGTCATAGCTTTGTTTTTGGTTGTGGGAACTCACTGGGTCTTCTCTAGCTGCAGATTTGCCTTCAACAAACGAGGGATTCTAATACCTACCCCAGGGTTGCTGGGAGGGCCCCCACGGTACCTGTGACCGCTGGGGAGTGCCAAGCAGGCTGGCCCCAGGACTCACTGTTCCCTCCTACTCTTTGCAG"
.upper())
def test_noncoding_gene(self):
PRDM15_uid = get_all_transcripts("PRDM15",
"grch38")[0]["qualifiers"]["uid"]
transcript = Transcript(PRDM15_uid, "grch38")
exons = transcript.get_coding()
exon_seq = transcript.get_seq_from_pos(exons)
self.assertEqual(
exon_seq,
"ATGGCTGAAGATGGGAGCGAAGAGATCATGTTCATCTGGTGTGAAGACTGCAGCCAGTACCACGACTCCGAATGTCCCGAGCTGGGCCCAGTGGTCATGGTCAAAGACTCCTTTGTGTTAAGCAGGGCAAGGTCATCCCTTCCTCCCAACTTGGAGATCAGACGACTGGAAGATGGAGCCGAGGGGGTGTTCGCCATCACTCAGCTCGTCAAGCGGACACAGTTCGGTCCCTTTGAGTCCAGGAGGGTCGCCAAATGGGAAAAGGAGTCTGCATTTCCCCTGAAGGTGTTCCAGAAGGACGGGCACCCCGTGTGCTTCGACACCTCCAACGAGGATGACTGCAACTGGATGATGCTGGTGCGGCCAGCGGCGGAGGCCGAGCACCAGAACCTGACGGCCTACCAGCACGGCAGCGACGTGTACTTCACCACCTCCAGAGACATCCCCCCGGGTACCGAGCTGCGCGTGTGGTATGCGGCCTTCTATGCCAAGAAGATGGACAAGCCCATGCTGAAGCAGGCCGGCTCTGGCGTCCACGCTGCAGGCACCCCAGAAAACAGCGCCCCCGTGGAGTCGGAGCCCAGCCAGTGGGCGTGTAAAGTGTGTTCTGCCACCTTCCTGGAGCTGCAGCTCCTCAATGAACATCTGTTGGGCCACTTAGAACAAGCCAAAAGCCTTCCTCCAGGCAGCCAAAGCGAGGCAGCAGCTCCCGAGAAGGAGCAGGACACACCCCGGGGGGAACCCCCTGCAGTGCCCGAGAGCGAGAATGTTGCCACCAAAGAACAGAAGAAAAAGCCTCGAAGGGGGAGAAAACCCAAAGTGTCCAAAGCTGAGCAGCCTCTAGTCATCGTGGAAGACAAGGAACCCACAGAGCAAGTGGCAGAGATCATTACCGAGGTCCCTCCGGATGAGCCTGTGAGTGCAACGCCAGATGAGCGGATCATGGAGCTGGTTCTGGGGAAGCTGGCCACCACCACCACTGACACCAGCTCGGTTCCAAAGTTCACCCATCATCAGAATAACACCATCACGCTCAAGAGGAGCTTAATTCTCTCAAGCAGACACGGCATCCGGCGCAAGCTCATCAAACAGCTCGGGGAGCACAAGCGGGTTTACCAGTGCAATATCTGCAGCAAGATCTTCCAGAACAGCAGCAACCTGAGCAGGCACGTGCGCTCGCATGGTGACAAGCTGTTTAAGTGCGAAGAGTGTGCAAAATTGTTCAGCCGCAAAGAGAGCCTAAAGCAGCACGTTTCCTACAAGCACAGCAGGAACGAGGTGGACGGCGAGTACAGGTACCGCTGCGGCACTTGTGAGAAGACCTTCCGCATCGAGAGCGCGCTGGAGTTCCACAACTGCAGGACAGATGACAAGACGTTCCAATGTGAGATGTGTTTCAGATTCTTCTCCACCAACAGCAACCTCTCCAAGCACAAGAAGAAGCACGGCGACAAGAAGTTTGCCTGTGAGGTCTGCAGCAAGATGTTCTACCGCAAGGACGTCATGCTGGACCACCAGCGCCGGCACCTGGAAGGAGTGCGGCGAGTGAAGCGAGAGGACCTGGAGGCCGGTGGGGAGAACCTGGTCCGTTACAAGAAGGAGCCTTCCGGGTGCCCGGTGTGTGGCAAGGTGTTCTCCTGCCGGAGCAATATGAACAAGCACCTGCTCACCCACGGCGACAAGAAGTACACCTGCGAGATCTGCGGGCGCAAGTTCTTCCGCGTGGATGTGCTCAGGGACCACATCCATGTCCACTTCAAGGACATCGCGTTGATGGATGACCACCAGAGGGAAGAGTTTATCGGCAAGATCGGGATCTCCTCGGAAGAAAACGATGACAATTCTGACGAGAGCGCAGACTCGGAGCCTCACAAGTACAGCTGCAAGCGGTGCCAGCTCACCTTCGGCCGGGGGAAGGAGTACCTGAAGCACATCATGGAGGTGCACAAGGAGAAGGGCTATGGCTGCAGCATCTGCAACCGGCGCTTTGCACTGAAGGCCACCTACCACGCCCACATGGTCATCCACCGTGAAAACCTGCCGGACCCCAACGTGCAGAAGTACATCCACCCCTGCGAGATCTGCGGGCGGATCTTCAACAGCATCGGGAACCTGGAGCGCCACAAGCTCATCCACACAGGTGTGAAGAGCCACGCCTGCGAGCAGTGTGGGAAGTCCTTTGCCAGGAAGGACATGCTGAAGGAGCACATGCGTGTGCACGACAATGTCCGCGAGTACCTGTGTGCCGAGTGTGGGAAAGGCATGAAGACCAAGCACGCGCTGCGCCACCACATGAAGCTGCACAAGGGCATCAAGGAGTACGAGTGCAAGGAGTGCCACCGCAGGTTCGCGCAGAAGGTCAACATGCTCAAGCACTGCAAGCGGCACACGGGGATTAAAGATTTCATGTGTGAATTGTGTGGGAAGACATTCAGCGAGAGGAACACCATGGAGACCCACAAGCTCATCCACACAGTGGGCAAGCAGTGGACGTGCTCCGTGTGCGACAAGAAGTACGTGACCGAGTACATGCTGCAGAAGCACGTTCAGCTCACACACGACAAGGTGGAGGCGCAGAGCTGCCAGCTGTGCGGGACCAAGGTGTCCACCAGGGCCTCCATGAGCCGACACATGCGGCGCAAGCACCCCGAGGTGCTCGCGGTGAGGATCGATGACCTGGACCACCTCCCGGAGACCACCACCATCGACGCCTCCTCCATTGGCATCGTCCAGCCTGAGCTGACTCTGGAGCAGGAGGATTTGGCCGAAGGGAAGCACGGGAAAGCTGCCAAGCGAAGTCACAAGAGAAAGCAGAAGCCAGAAGAGGAGGCGGGTGCTCCGGTGCCCGAGGACGCCACCTTCAGCGAATACTCAGAGAAAGAGACGGAGTTCACAGGCAGTGTAGGCGACGAGACCAATTCCGCAGTACAGAGCATTCAGCAGGTAGTGGTGACCCTGGGTGACCCAAATGTGACCACACCATCGAGCTCAGTCGGCTTAACCAACATCACCGTGACCCCCATCACCACTGCGGCCGCGACTCAGTTTACCAATCTCCAGCCGGTGGCCGTGGGGCACCTTACCACCCCTGAACGCCAGTTACAGCTGGACAACTCAATCCTGACCGTGACCTTTGATACCGTCAGCGGCTCTGCCATGTTGCACAACCGCCAAAATGACGTCCAGATCCACCCCCAGCCGGAAGCCTCGAACCCACAGTCTGTGGCCCATTTCATCAACCTGACGACCCTGGTCAACTCCATCACGCCCCTGGGGAGCCAGCTTAGTGACCAGCACCCGCTCACGTGGCGGGCAGTGCCCCAGACTGACGTCTTGCCACCCTCGCAGCCGCAGGCACCCCCACAGCAGGCGGCCCAGCCCCAGGTGCAGGCGGAGCAGCAGCAGCAGCAGATGTACAGCTACTGA"
)
def test_get_coding_negative_exons(self):
TOR1A_uid = get_all_transcripts("TOR1A",
"grch38")[0]["qualifiers"]["uid"]
transcript = Transcript(TOR1A_uid, "grch38")
exons = transcript.get_coding()
exon_seq = transcript.get_seq_from_pos(exons)
self.assertEqual(
exon_seq,
"ATGAAGCTGGGCCGGGCCGTGCTGGGCCTGCTGCTGCTGGCGCCGTCCGTGGTGCAGGCGGTGGAGCCCATCAGCCTGGGACTGGCCCTGGCCGGCGTCCTCACCGGCTACATCTACCCGCGTCTCTACTGCCTCTTCGCCGAGTGCTGCGGGCAGAAGCGGAGCCTTAGCCGGGAGGCACTGCAGAAGGATCTGGACGACAACCTCTTTGGACAGCATCTTGCAAAGAAAATCATCTTAAATGCCGTGTTTGGTTTCATAAACAACCCAAAGCCCAAGAAACCTCTCACGCTCTCCCTGCACGGGTGGACAGGCACCGGCAAAAATTTCGTCAGCAAGATCATCGCAGAGAATATTTACGAGGGTGGTCTGAACAGTGACTATGTCCACCTGTTTGTGGCCACATTGCACTTTCCACATGCTTCAAACATCACCTTGTACAAGGATCAGTTACAGTTGTGGATTCGAGGCAACGTGAGTGCCTGTGCGAGGTCCATCTTCATATTTGATGAAATGGATAAGATGCATGCAGGCCTCATAGATGCCATCAAGCCTTTCCTCGACTATTATGACCTGGTGGATGGGGTCTCCTACCAGAAAGCCATGTTCATATTTCTCAGCAATGCTGGAGCAGAAAGGATCACAGATGTGGCTTTGGATTTCTGGAGGAGTGGAAAGCAGAGGGAAGACATCAAGCTCAAAGACATTGAACACGCGTTGTCTGTGTCGGTTTTCAATAACAAGAACAGTGGCTTCTGGCACAGCAGCTTAATTGACCGGAACCTCATTGATTATTTTGTTCCCTTCCTCCCCCTGGAATACAAACACCTAAAAATGTGTATCCGAGTGGAAATGCAGTCCCGAGGCTATGAAATTGATGAAGACATTGTAAGCAGAGTGGCTGAGGAGATGACATTTTTCCCCAAAGAGGAGAGAGTTTTCTCAGATAAAGGCTGCAAAACGGTGTTCACCAAGTTAGATTATTACTACGATGATTGA"
)
def test_get_utrs_negative_strand(self):
TOR1A_uid = get_all_transcripts("TOR1A",
"grch38")[0]["qualifiers"]["uid"]
transcript = Transcript(TOR1A_uid, "grch38")
both_utr = transcript.get_utr("both")
both_utr = transcript.get_seq_from_pos(both_utr)
self.assertEqual(
both_utr,
"GCACCGGTTCGCGGTCGGCGCGAGAACAAGCAGGGTGGCGCGGGTCCGGGCCAGTCATGATTGGCAGCCGGAGTCACTGCCTGGAGTTGGAAAAGAAACAACACTCAGTCCTTCCACACTTCCACCCCCAGCTCCTTTCCCTGGAAGAGGAATCCAGTGAATGTTCCTGTTTGATGTGACAGGAATTCTCCCTGGCATTGTTTCCACCCCCTGGTGCCTGCAGGCCACCCAGGGACCACGGGCGAGGACGTGAAGCCTCCCGAACACGCACAGAAGGAAGGAGCCAGCTCCCAGCCCACTCATCGCAGGGCTCATGATTTTTTACAAATTATGTTTTAATTCCAAGTGTTTCTGTTTCAAGGAAGGATGAATAAGTTTTATTGAAAATGTGGTAACTTTATTTAAAATGATTTTTAACATTATGAGAGACTGCTCAGATTCTAAGTTGTTGGCCTTGTGTGTGTGTTTTTTTTTAAGTTCTCATCATTATTACATAGACTGTGATGTATCTTTACTGGAAATGAGCCCAAGCACACATGCATGGCATTTGTTCCACAGGAGGGCATCCCTGGGGATGTGGCTGGAGCATGAGCCAGCTCTGTCCCAGGATGGTCCCAGCGGATGCTGCCAGGGGCAGTGAAGTGTTTAGGTGAAGGACAAGTAGGTAAGAGGACGCCTTCAGGCACCACAGATAAGCCTGAAACAGCCTCTCCAAGGGTTTTCACCTTAGCAACAATGGGAGCTGTGGGAGTGATTTTGGCCACACTGTCAACATTTGTTAGAACCAGTCTTTTGAAAGAAAAGTATTTCCAACTTGTCACTTGCCAGTCACTCCGTTTTGCAAAAGGTGGCCCTTCACTGTCCATTCCAAATAGCCCACACGTGCTCTCTGCTGGATTCTAAATTATGTGAATTTTGCCATATTAAATCTTCCTCATTTATACTATTATTTGTTACGTTCAATCAGAATCCCCGAAACCTCCTATAAAGCTTAGCTGCCCCTTCTGAGGATGCTGAGAACGGTGTCTTTCTTTATAAATGCAAATGGCTACCGTTTTACAATAAAATTTTGCATGTGCCA"
)
prime_5 = transcript.get_utr("5_prime")
prime_5 = transcript.get_seq_from_pos(prime_5)
self.assertEqual(
prime_5, "GCACCGGTTCGCGGTCGGCGCGAGAACAAGCAGGGTGGCGCGGGTCCGGGC")
prime_3 = transcript.get_utr("3_prime")
prime_3 = transcript.get_seq_from_pos(prime_3)
self.assertEqual(
prime_3,
"CAGTCATGATTGGCAGCCGGAGTCACTGCCTGGAGTTGGAAAAGAAACAACACTCAGTCCTTCCACACTTCCACCCCCAGCTCCTTTCCCTGGAAGAGGAATCCAGTGAATGTTCCTGTTTGATGTGACAGGAATTCTCCCTGGCATTGTTTCCACCCCCTGGTGCCTGCAGGCCACCCAGGGACCACGGGCGAGGACGTGAAGCCTCCCGAACACGCACAGAAGGAAGGAGCCAGCTCCCAGCCCACTCATCGCAGGGCTCATGATTTTTTACAAATTATGTTTTAATTCCAAGTGTTTCTGTTTCAAGGAAGGATGAATAAGTTTTATTGAAAATGTGGTAACTTTATTTAAAATGATTTTTAACATTATGAGAGACTGCTCAGATTCTAAGTTGTTGGCCTTGTGTGTGTGTTTTTTTTTAAGTTCTCATCATTATTACATAGACTGTGATGTATCTTTACTGGAAATGAGCCCAAGCACACATGCATGGCATTTGTTCCACAGGAGGGCATCCCTGGGGATGTGGCTGGAGCATGAGCCAGCTCTGTCCCAGGATGGTCCCAGCGGATGCTGCCAGGGGCAGTGAAGTGTTTAGGTGAAGGACAAGTAGGTAAGAGGACGCCTTCAGGCACCACAGATAAGCCTGAAACAGCCTCTCCAAGGGTTTTCACCTTAGCAACAATGGGAGCTGTGGGAGTGATTTTGGCCACACTGTCAACATTTGTTAGAACCAGTCTTTTGAAAGAAAAGTATTTCCAACTTGTCACTTGCCAGTCACTCCGTTTTGCAAAAGGTGGCCCTTCACTGTCCATTCCAAATAGCCCACACGTGCTCTCTGCTGGATTCTAAATTATGTGAATTTTGCCATATTAAATCTTCCTCATTTATACTATTATTTGTTACGTTCAATCAGAATCCCCGAAACCTCCTATAAAGCTTAGCTGCCCCTTCTGAGGATGCTGAGAACGGTGTCTTTCTTTATAAATGCAAATGGCTACCGTTTTACAATAAAATTTTGCATGTGCCA"
)
