BtaINT0038386 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007517 | CHRNB2
Description
cholinergic receptor, nicotinic, beta 2 (neuronal) [Source:HGNC Symbol;Acc:HGNC:1962]
Coordinates
chr3:16059671-16064486:-
Coord C1 exon
chr3:16063517-16064486
Coord A exon
chr3:16059842-16063516
Coord C2 exon
chr3:16059671-16059841
Length
3675 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
CCTACCCTTCCTCTCTCCAGGTG
3' ss Score
12.39
Exon sequences
Seq C1 exon
TGCCGACGGCATGTACGAGGTGTCCTTCTATTCCAATGCGGTGGTCTCCTATGATGGCAGCATCTTCTGGCTGCCGCCTGCCATCTACAAGAGCGCATGCAAGATCGAGGTAAAGCACTTCCCGTTTGACCAGCAGAACTGCACCATGAAGTTCCGCTCGTGGACCTACGACCGCACTGAGATCGACCTGGTGCTCAAGAGTGATGTGGCCAACCTGGACGACTTCACACCCAGCGGCGAGTGGGACATAGTGGCGCTGCCCGGCCGACGCAACGAGAACCCGGATGACTCCACTTACGTGGACATCACATACGACTTCATCATCCGTCGCAAGCCACTCTTCTACACCATCAATCTCATCATCCCCTGCGTCCTCATCACCTCTCTAGCCATCCTCGTCTTCTACCTGCCGTCTGACTGCGGTGAGAAGATGACGCTCTGCATCTCCGTGCTGCTGGCGCTTACAGTCTTCCTGCTGCTCATCTCTAAGATCGTGCCGCCCACCTCCCTTGACGTTCCGCTAGTCGGCAAGTACCTCATGTTCACCATGGTGCTGGTCACCTTCTCCATCGTCACCAGCGTGTGCGTGCTCAACGTGCACCACCGCTCACCCACCACGCACACCATGGCGCCCTGGGTCAAGGTCGTCTTCCTGGAGAAGCTGCCCACGCTGCTGTTCATGCAGCAGCCGCGCCACCGCTGCGCCCGCCAACGCCTTCGCCTGCGGCGGCGCCAGCGCGAGCGAGAGGGAGCCGGCGCTCTCTTCCGCGAGGCCCTGGGGGCCGACTCCTGCACGTGCTTCGTCAACCGCGCGTCGGTGCAGGGCTTGGCTGGGGCCTTCGGCTCGGAGCCGGCGCCGGCAGCAGGCCCCGGGCGCGCCAGGGGGCCGTGTGGCTGCGGCCTCCGGGAGGCGGTGGACGGCGTGCGCTTCATCGCAGATCATATGCGGAGTGAGGACGACGACCAGAGC
Seq A exon
GTGAGTGCAGCTCAGGGACTCGGGCATGGGATGCGGGGCTGCAGGGCCCCTCAGAAGCTCCGCAGACAAAGCTAATCGGAGTGCAGGATGCCGACAATGCGAGTCTGGTCTGGGGCTGTGGGCCTGGGTGCTGGCGCAGCCTCTCCTTTGGCTTCTGGGAGGTGGCGCCGCCTAAGTTGCCGTTGGTCCAGGATGACCTTGCTGCTTCCCGAGTACTAGCATTCGGAGGGAAATGCCTCGGCTGGGGCATCCTTAGTGTCGTTAGTTTTGGAAAGGTGGCCACAAAGGGGAGGAGGCCCTTGTGGGTTTGCAGCTGTCCTGTGGCTGTGTCCCCAGAGACCCTCTCTGCCGCTTGTGTTCCCAAGACCATGTTGTTAACCTGCAGCTCTTTGCACAAATGAGGATGAATCCTTGGGGTGCCCCGTGTTGGGGGCAAAATTGAGGGCAGTAGAAAGTGTGTATGGGAGGTGTTGGGGTGGTTAGGTGGCTCCACCGGCCACTGGGAAGAGGACAGAACCCCAAATCAATATCCGTTTCCTTCTCTTCTGAATTCTCAGGGAATGGCCTTGTGAAATATTTATGGAGGTGGAGGCAAGTGAAGGCCAGGGCTTCCAAAACCTGCCCAGAGCTTTCTGCACACATGGCTTTTTCTGCAGTGGCTCTACCTGAAGGGGACTCCTTGAACACTGAACCAGGGGATGAGGAGTGGGGAAGACGAGGGGTTGACTTCCCCTCATTTGGGGTTGTGGCTGGCCCTATTCAGCAGTCTTTAATCACGTGGCTGGTTCCAGGCTGCGGCTCAACTGTTGCCATGATAACTGGCCATTCCCACTGGGATGCAGTCATTCTGGCCTGGGGAATAAGGAAGGGCAGGCTCCTGCATTATTGTTTGTGGGGGGTGGGATGCTCCAGAGCCTAGTGTTTCTGTCCCTTGGGAGGGCAGGAGCTGGGGCTTGAGCCAGGGAGCAGGTTATGGTCCTGAAGGAAGATGAGAGGGACCACAGCAAGAGAGGATGGGGCTCGAGGCTCAGAGGTGGCTGAGGCCAAGTGGGGAATGCTGGTGGTGCAGGGGCTCAGCTGGCTGTGCCACTGTCTCTGCCTCCCCCACTGCAGCAAACGCATGTAATGTGCATTTACTGAGCTAGGTGATGAGGACACAATGACCTACTTGGATGTTTCACAGGCATCTCAAACTTAACATGTCCAAAACTGAGTGCTTGATTTACATCCCCACCACCAACTTGCTCCTCCTCTCATCTCCCCATCCTTCAGTAAATGACATCACCATCCACCCAATGGTTTAGACCAGAAGCCTGGAGTGATCCTCGATGCCTGTCTTTCTTATCTCCCCCACCATCCAAATCATCAGAAGTTCTGTCTTGTGAGCTCAACCTCCAGAATCATTCTCAGCTTCATCCTTCATTCACCATCTCCATGCTGCCTCCCTGGCTGTGCCTCCATCAGCTCTTGCCTGGCCCAGGGCAGGGGATTCTGATGGTCTCCCTGACTCAGTTCTTGTGCTTCTCCATCCAAACAATGTCCCCTGCTCACCACGTGTCATCTCTCCACAGCTCAGGTCACTGGCTTATCTGACGCTTGTTCTAAGCAAGCTAAGCTCTTTCCTGCCTCAAGACCTTTGCACACACTGGTCCATCTGCTTGGAATGCCCTTTTTTTTTCCCTTTTAAAAATTATTACTATTATTAATTTTTGCCCTATTGTTGAGAGTAAGTGACCCTTTATCCCAAATACTCCAGCTTTTCTCTCCCAAGGACAGAGATGTTGTCTTCTATAACCCAGGCCTGGTGATCAAATTCAGGAAATTAGCATCAATACCTTTATCTGATATAAAGTCCATACTAAAATTTTTTTAATTGTCTCAGTAATATCCTTTGTACCATCTCCTCCACCTCAGTCTAGGATCTTGAATTGCACTTGGCTGTCCTGTCTCTTTTGTTTGCTTCACTCTGGAACAGTTCCTTAGCTTTGTGTTTCATGGCATAGACATTTTTGAAGGGCCCAGGCCAATTGAAGGTCCCTCAGTTTGCAAGTTGGACATGACTTAGAAACTAAACCACCACCACCACAGTTTGGGTTTGTCTGGTTCCTTCTTCAATTTATTCCTGATATAGCTGGCTTCTTGTCACTTATCAGATCTTCACTTAAGATATTACTCCCTCAAAGAGGCCTCCCCAAATCATACCCTGAATGATATCTCCCCCTCCATTTCTCTGGCCTTTGTTTCCAGGCTTCCCTGGTGGCTCAGACGGTAAAGCGTCTGCCTGCAATGTGGGAGACCTGGGTTCGATTCCTGGGTCGTGAAGATCCCCTGGAGAAGGAAATGGCAATCCACTCTAGCATTCTTGCCTGGAAAATCCCATGGATGGAGGAGCCTGATAGGCTACAGTCCATGGGGTCGCAAAGAGTTGGACATGACTTCACTTTCACTTTCAAGCACCCAAAAGGGTGTAATTATTATTTTTACTTATTTTGTGTTCATCTCCCTCAGTAGACTGAACTGCAGGATGTGTTTGTCTTGCTCTCTCACATCCCCAGTGCCCAGTAGGGTGCCAGGTACACCGGAGGCACAAGGTTACAGGTGGACATGTGTGCCAAGGTCCAGACTCAGACACGAGTGGAACGGCTCTGAGTGGAGGCCAGCTCTCACGCAGAGCCTGTGACTGGCTCCCAAACACAGTGGTTATTCTCTTCTGGATGGGTTTGTTGGCATCTGAGACTCAGTCCTCACATCCTGGGGCTGTTGGAAGGGGCTTCCCAGGCAGTTATATAAGGAGTGAGGCCTGCATGGCAGCCATTCATTCACTAGTTCAACACTCATTTACTGGAACTCTGTGTTTGAGATGCTGGGATTACAAAAATGAGTCAGATCAGGCCCCTGTAGTTTACAAGCTCATAGCTTCAGTTGGGGTGGGAGTCGGGGAGGGAGGAGAGGACAGGCATATGAATTGAACTGACAATACGGTGGAGTAAAAATACTGGGCTTCCCTGGTGGCCAGACAGTAAAGAATCTCCCCTGTAAGGCTGGAGACCTGGGTTCAATCCCTGGGTGGGGAAGATCCCCTGGAGGAGGGTATGGCAACCCACTCCAGTATTCTTGCCTGGAGAATCCCATGGACAGAAGAGCCTGGCGGGCTACCGTCCATGGGGTTGTAAAGAGTCGGACACGACTGAGTGCCTAAGCACAGCACAGCACAGATAATGCTGAGGGAACCCCAGAGGAAACAGAGGTTCATCCTGATCTGGGGGATCAGAGAAGGCGTCATAGAAGAGGTGACATTTTGATTTAGGCTTTGAAAGATGTGTAGGAGCTCACAAGTAGAGATAGGGAGGACTGGAATTCCAGACTGAGAGGAAACCCAGAGGCACAGAGACCTGAGAGGGCAGACGAGTTTGGTAAGTCTGAGTCGGACTTGGAAGAAGATAAATGTTGGCTCGTATTTGTCATGGGTGCTCTTGATTCTAGACTTGGGAGTTTGGGTGGCTGCTGAAGGCACTGGGGTCACTGGAGGCTTTTAAGCAGGCAAGACTGAAGCTGAACTTTGGAACGGTCGCTCCTGGGGTCAAGTGATGTGTGATGGAAGTTGCTTATACCCGATCCAGGCCCCTCCTGTATTATGTGACTGATACCTGGGTCTCCTACCCTTCCTCTCTCCAG
Seq C2 exon
GTGAGTGAGGACTGGAAGTATGTTGCCATGGTGATTGACCGCCTGTTCCTTTGGATCTTTGTCTTCGTCTGTGTCTTTGGCACGATCGGCATGTTCCTGCAGCCTCTCTTCCAGAACTACGCCACTGCCACCTTCCTCCACGCAGACCACTCGGCTCCCAGCTCCAAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007517:ENSBTAT00000009892:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(54.4=34.6),PF0293211=Neur_chan_memb=PU(86.1=63.0)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.1=54.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]