Annotated gene sequence

GATTGGCTGGTCTGCTTCGGGCGGGCTAAAGGAAGGTTCAAGTGGAGCTCTCCTAACCGACGCGCGTCTGTGGAGAAGCGGCTTGGTCGGGGGTGGTCTC
GTGGGGTCCTGCCTGTTTAGTCGCTTTCAGGGTTCTTGAGCCCCTTCACGACCGTCACCATGGAAGTGTCACCATTGCAGCCTGTAAATGAAAATATGCA
AGTCAACAAAATAAAGAAAAATGAAGATGCTAAGAAAAGACTGTCTGTTGAAAGAATCTATCAAAAGAAAACACAATTGGAACATATTTTGCTCCGCCCA
GACACCTACATTGGTTCTGTGGAATTAGTGACCCAGCAAATGTGGGTTTACGATGAAGATGTTGGCATTAACTATAGGGAAGTCACTTTTGTTCCTGGTT
TGTACAAAATCTTTGATGAGATTCTAGTTAATGCTGCGGACAACAAACAAAGGGACCCAAAAATGTCTTGTATTAGAGTCACAATTGATCCGGAAAACAA
TTTAATTAGTATATGGAATAATGGAAAAGGTATTCCTGTTGTTGAACACAAAGTTGAAAAGATGTATGTCCCAGCTCTCATATTTGGACAGCTCCTAACT
TCTAGTAACTATGATGATGATGAAAAGAAAGTGACAGGTGGTCGAAATGGCTATGGAGCCAAATTGTGTAACATATTCAGTACCAAATTTACTGTGGAAA
CAGCCAGTAGAGAATACAAGAAAATGTTCAAACAGACATGGATGGATAATATGGGAAGAGCTGGTGAGATGGAACTCAAGCCCTTCAATGGAGAAGATTA
TACATGTATCACCTTTCAGCCTGATTTGTCTAAGTTTAAAATGCAAAGCCTGGACAAAGATATTGTTGCACTAATGGTCAGAAGAGCATATGATATTGCT
GGATCCACCAAAGATGTCAAAGTCTTTCTTAATGGAAATAAACTGCCAGTAAAAGGATTTCGTAGTTATGTGGACATGTATTTGAAGGACAAGTTGGATG
AAACTGGTAACTCCTTGAAAGTAATACATGAACAAGTAAACCACAGGTGGGAAGTGTGTTTAACTATGAGTGAAAAAGGCTTTCAGCAAATTAGCTTTGT
CAACAGCATTGCTACATCCAAGGGTGGCAGACATGTTGATTATGTAGCTGATCAGATTGTGACTAAACTTGTTGATGTTGTGAAGAAGAAGAACAAGGGT
GGTGTTGCAGTAAAAGCACATCAGGTGAAAAATCACATGTGGATTTTTGTAAATGCCTTAATTGAAAACCCAACCTTTGACTCTCAGACAAAAGAAAACA
TGACTTTACAACCCAAGAGCTTTGGATCAACATGCCAATTGAGTGAAAAATTTATCAAAGCTGCCATTGGCTGTGGTATTGTAGAAAGCATACTAAACTG
GGTGAAGTTTAAGGCCCAAGTCCAGTTAAACAAGAAGTGTTCAGCTGTAAAACATAATAGAATCAAGGGAATTCCCAAACTCGATGATGCCAATGATGCA
GGGGGCCGAAACTCCACTGAGTGTACGCTTATCCTGACTGAGGGAGATTCAGCCAAAACTTTGGCTGTTTCAGGCCTTGGTGTGGTTGGGAGAGACAAAT
ATGGGGTTTTCCCTCTTAGAGGAAAAATACTCAATGTTCGAGAAGCTTCTCATAAGCAGATCATGGAAAATGCTGAGATTAACAATATCATCAAGATTGT
GGGTCTTCAGTACAAGAAAAACTATGAAGATGAAGATTCATTGAAGACGCTTCGTTATGGGAAGATAATGATTATGACAGATCAGGACCAAGATGGTTCC
CACATCAAAGGCTTGCTGATTAATTTTATCCATCACAACTGGCCCTCTCTTCTGCGACATCGTTTTCTGGAGGAATTTATCACTCCCATTGTAAAGGTAT
CTAAAAACAAGCAAGAAATGGCATTTTACAGCCTTCCTGAATTTGAAGAGTGGAAGAGTTCTACTCCAAATCATAAAAAATGGAAAGTCAAATATTACAA
AGGTTTGGGCACCAGCACATCAAAGGAAGCTAAAGAATACTTTGCAGATATGAAAAGACATCGTATCCAGTTCAAATATTCTGGTCCTGAAGATGATGCT
GCTATCAGCCTGGCCTTTAGCAAAAAACAGATAGATGATCGAAAGGAATGGTTAACTAATTTCATGGAGGATAGAAGACAACGAAAGTTACTTGGGCTTC
CTGAGGATTACTTGTATGGACAAACTACCACATATCTGACATATAATGACTTCATCAACAAGGAACTTATCTTGTTCTCAAATTCTGATAACGAGAGATC
TATCCCTTCTATGGTGGATGGTTTGAAACCAGGTCAGAGAAAGGTTTTGTTTACTTGCTTCAAACGGAATGACAAGCGAGAAGTAAAGGTTGCCCAATTA
GCTGGATCAGTGGCTGAAATGTCTTCTTATCATCATGGTGAGATGTCACTAATGATGACCATTATCAATTTGGCTCAGAATTTTGTGGGTAGCAATAATC
TAAACCTCTTGCAGCCCATTGGTCAGTTTGGTACCAGGCTACATGGTGGCAAGGATTCTGCTAGTCCACGATACATCTTTACAATGCTCAGCTCTTTGGC
TCGATTGTTATTTCCACCAAAAGATGATCACACGTTGAAGTTTTTATATGATGACAACCAGCGTGTTGAGCCTGAATGGTACATTCCTATTATTCCCATG
GTGCTGATAAATGGTGCTGAAGGAATCGGTACTGGGTGGTCCTGCAAAATCCCCAACTTTGATGTGCGTGAAATTGTAAATAACATCAGGCGTTTGATGG
ATGGAGAAGAACCTTTGCCAATGCTTCCAAGTTACAAGAACTTCAAGGGTACTATTGAAGAACTGGCTCCAAATCAATATGTGATTAGTGGTGAAGTAGC
TATTCTTAATTCTACAACCATTGAAATCTCAGAGCTTCCCGTCAGAACATGGACCCAGACATACAAAGAACAAGTTCTAGAACCCATGTTGAATGGCACC
GAGAAGACACCTCCTCTCATAACAGACTATAGGGAATACCATACAGATACCACTGTGAAATTTGTTGTGAAGATGACTGAAGAAAAACTGGCAGAGGCAG
AGAGAGTTGGACTACACAAAGTCTTCAAACTCCAAACTAGTCTCACATGCAACTCTATGGTGCTTTTTGACCACGTAGGCTGTTTAAAGAAATATGACAC
GGTGTTGGATATTCTAAGAGACTTTTTTGAACTCAGACTTAAATATTATGGATTAAGAAAAGAATGGCTCCTAGGAATGCTTGGTGCTGAATCTGCTAAA
CTGAATAATCAGGCTCGCTTTATCTTAGAGAAAATAGATGGCAAAATAATCATTGAAAATAAGCCTAAGAAAGAATTAATTAAAGTTCTGATTCAGAGGG
GATATGATTCGGATCCTGTGAAGGCCTGGAAAGAAGCCCAGCAAAAGGTTCCAGATGAAGAAGAAAATGAAGAGAGTGACAACGAAAAGGAAACTGAAAA
GAGTGACTCCGTAACAGATTCTGGACCAACCTTCAACTATCTTCTTGATATGCCCCTTTGGTATTTAACCAAGGAAAAGAAAGATGAACTCTGCAGGCTA
AGAAATGAAAAAGAACAAGAGCTGGACACATTAAAAAGAAAGAGTCCATCAGATTTGTGGAAAGAAGACTTGGCTACATTTATTGAAGAATTGGAGGCTG
TTGAAGCCAAGGAAAAACAAGATGAACAAGTCGGACTTCCTGGGAAAGGGGGGAAGGCCAAGGGGAAAAAAACACAAATGGCTGAAGTTTTGCCTTCTCC
GCGTGGTCAAAGAGTCATTCCACGAATAACCATAGAAATGAAAGCAGAGGCAGAAAAGAAAAATAAAAAGAAAATTAAGAATGAAAATACTGAAGGAAGC
CCTCAAGAAGATGGTGTGGAACTAGAAGGCCTAAAACAAAGATTAGAAAAGAAACAGAAAAGAGAACCAGGTACAAAGACAAAGAAACAAACTACATTGG
CATTTAAGCCAATCAAAAAAGGAAAGAAGAGAAATCCCTGGTCTGATTCAGAATCAGATAGGAGCAGTGACGAAAGTAATTTTGATGTCCCTCCACGAGA
AACAGAGCCACGGAGAGCAGCAACAAAAACAAAATTCACAATGGATTTGGATTCAGATGAAGATTTCTCAGATTTTGATGAAAAAACTGATGATGAAGAT
TTTGTCCCATCAGATGCTAGTCCACCTAAGACCAAAACTTCCCCAAAACTTAGTAACAAAGAACTGAAACCACAGAAAAGTGTCGTGTCAGACCTTGAAG
CTGATGATGTTAAGGGCAGTGTACCACTGTCTTCAAGCCCTCCTGCTACACATTTCCCAGATGAAACTGAAATTACAAACCCAGTTCCTAAAAAGAATGT
GACAGTGAAGAAGACAGCAGCAAAAAGTCAGTCTTCCACCTCCACTACCGGTGCCAAAAAAAGGGCTGCCCCAAAAGGAACTAAAAGGGATCCAGCTTTG
AATTCTGGTGTCTCTCAAAAGCCTGATCCTGCCAAAACCAAGAATCGCCGCAAAAGGAAGCCATCCACTTCTGATGATTCTGACTCTAATTTTGAGAAAA
TTGTTTCGAAAGCAGTCACAAGCAAGAAATCCAAGGGGGAGAGTGATGACTTCCATATGGACTTTGACTCAGCTGTGGCTCCTCGGGCAAAATCTGTACG
GGCAAAGAAACCTATAAAGTACCTGGAAGAGTCAGATGAAGATGATCTGTTTTAAAATGTGAGGCGATTATTTTAAGTAATTATCTTACCAAGCCCAAGA
CTGGTTTTAAAGTTACCTGAAGCTCTTAACTTCCTCCCCTCTGAATTTAGTTTGGGGAAGGTGTTTTTAGTACAAGACATCAAAGTGAAGTAAAGCCCAA
GTGTTCTTTAGCTTTTTATAATACTGTCTAAATAGTGACCATCTCATGGGCATTGTTTTCTTCTCTGCTTTGTCTGTGTTTTGAGTCTGCTTTCTTTTGT
CTTTAAAACCTGATTTTTAAGTTCTTCTGAACTGTAGAAATAGCTATCTGATCACTTCAGCGTAAAGCAGTGTGTTTATTAACCATCCACTAAGCTAAAA
CTAGAGCAGTTTGATTTAAAAGTGTCACTCTTCCTCCTTTTCTACTTTCAGTAGATATGAGATAGAGCATAATTATCTGTTTTATCTTAGTTTTATACAT
AATTTACCATCAGATAGAACTTTATGGTTCTAGTACAGATACTCTACTACACTCAGCCTCTTATGTGCCAAGTTTTTCTTTAAGCAATGAGAAATTGCTC
ATGTTCTTCATCTTCTCAAATCATCAGAGGCCGAAGAAAAACACTTTGGCTGTGTCTATAACTTGACACAGTCAATAGAATGAAGAAAATTAGAGTAGTT
ATGTGATTATTTCAGCTCTTGACCTGTCCCCTCTGGCTGCCTCTGAGTCTGAATCTCCCAAAGAGAGAAACCAATTTCTAAGAGGACTGGATTGCAGAAG
ACTCGGGGACAACATTTGATCCAAGATCTTAAATGTTATATTGATAACCATGCTCAGCAATGAGCTATTAGATTCATTTTGGGAAATCTCCATAATTTCA
ATTTGTAAACTTTGTTAAGACCTGTCTACATTGTTATATGTGTGTGACTTGAGTAATGTTATCAACGTTTTTGTAAATATTTACTATGTTTTTCTATTAG
CTAAATTCCAACAATTTTGTACTTTAATAAAATGTTCTAAACATTGCAACCCATAGAA

Loop counts:

3 nts: 11
4 nts: 12
5 nts: 9
6 nts: 5
7 nts: 2
8 nts: 4
9 nts: 1
10 nts: 1

Tetra-loop variants:

AACU    1
GAUG    1
AUAA    1
AAUU    1
CUAA    1
UUCU    1
UUAU    1
GCAA    1
UGUG    1
AUGG    1
GACA    1
CUUG    1

Single bulge variants:

G x 0 bulge: 2
A x 0 bulge: 1
U x 0 bulge: 1
C x 0 bulge: 1

1 x 1 internal loop variants:

G x G bulge: 0
G x A bulge: 0
G x U bulge: 0
G x C bulge: 0
A x G bulge: 0
A x A bulge: 0
A x U bulge: 0
A x C bulge: 2
U x G bulge: 0
U x A bulge: 0
U x U bulge: 1
U x C bulge: 1
C x G bulge: 0
C x A bulge: 2
C x U bulge: 1
C x C bulge: 0