BtaINT0038385 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007517 | CHRNB2
Description
cholinergic receptor, nicotinic, beta 2 (neuronal) [Source:HGNC Symbol;Acc:HGNC:1962]
Coordinates
chr3:16063517-16065352:-
Coord C1 exon
chr3:16065243-16065352
Coord A exon
chr3:16064487-16065242
Coord C2 exon
chr3:16063517-16064486
Length
756 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
ACTGTGCCATCCCTTGGCAGTGC
3' ss Score
8.34
Exon sequences
Seq C1 exon
GAGTGGGAGGATTATCGCCTCACCTGGAAGCCTGAGGAATTTGACAACATGAAGAAAGTTCGGCTCCCTTCCAAACACATCTGGCTCCCAGATGTGGTCCTATACAACAA
Seq A exon
GTAGGTGACCCAGGAGGGATGGGAAGGCTGGAGGAGAACTTGAGAGTGCTCAGGTCTTAGAGAAAGTAAATTAGCTCATGCTGGGGTAGAGAAGGGACTTTTCATTGGCACAGACAACTCACTACTCAGATGGACAAACCCAAACCAGTGAGGTATAGTGTGGACAGCCAAGGTAACTTGGGTCATGGCCAGGTCCCTCCCAGTCAATTAGGACTCCCAGTGTTTGGAGCTGCGGTGTGACACAAACAAGGATTGACAGTCCCCAGTGTACAAACTGATTAAAAAATAGGCTTTCCTGGAGAAATGGTAAGAATCAAAGACCTTGGAGGTCCCAGTTTCTCCCCCAGGTTCCATCTGCTCTCCTACAATAAGCCATCTTACCTCCAAGACCCAAAGCCACTAGTCCCTAGGCTCTAGGTACCATCTCCTGCTCCCACCTGCCCCTGTCCCTCTCCATTGCTCTGGGCTCCTCACTCTGAGCTTCCTGGCTCTCCCAACTTCTCCACCTTCATGTGGACCAACCGGCTTATACAGTAAATGACAAGTAACAGAGGGGCCCCTCAGGCCTTCTGACCAGGACACCTCTTCTCCCCACCAACCCACCCACATCCCCTTCTTGCTTATTAATTCCTGGTCCTTCCTATCTCCCTCTTCCCATACCTCCCTTTGGCTTTCCTCTCTTCCCACTCTGGGCCGGGTGGATGGATGGGGTGGAGGCATGCTTAAGTCAGGGCTGACTGTGCCATCCCTTGGCAG
Seq C2 exon
TGCCGACGGCATGTACGAGGTGTCCTTCTATTCCAATGCGGTGGTCTCCTATGATGGCAGCATCTTCTGGCTGCCGCCTGCCATCTACAAGAGCGCATGCAAGATCGAGGTAAAGCACTTCCCGTTTGACCAGCAGAACTGCACCATGAAGTTCCGCTCGTGGACCTACGACCGCACTGAGATCGACCTGGTGCTCAAGAGTGATGTGGCCAACCTGGACGACTTCACACCCAGCGGCGAGTGGGACATAGTGGCGCTGCCCGGCCGACGCAACGAGAACCCGGATGACTCCACTTACGTGGACATCACATACGACTTCATCATCCGTCGCAAGCCACTCTTCTACACCATCAATCTCATCATCCCCTGCGTCCTCATCACCTCTCTAGCCATCCTCGTCTTCTACCTGCCGTCTGACTGCGGTGAGAAGATGACGCTCTGCATCTCCGTGCTGCTGGCGCTTACAGTCTTCCTGCTGCTCATCTCTAAGATCGTGCCGCCCACCTCCCTTGACGTTCCGCTAGTCGGCAAGTACCTCATGTTCACCATGGTGCTGGTCACCTTCTCCATCGTCACCAGCGTGTGCGTGCTCAACGTGCACCACCGCTCACCCACCACGCACACCATGGCGCCCTGGGTCAAGGTCGTCTTCCTGGAGAAGCTGCCCACGCTGCTGTTCATGCAGCAGCCGCGCCACCGCTGCGCCCGCCAACGCCTTCGCCTGCGGCGGCGCCAGCGCGAGCGAGAGGGAGCCGGCGCTCTCTTCCGCGAGGCCCTGGGGGCCGACTCCTGCACGTGCTTCGTCAACCGCGCGTCGGTGCAGGGCTTGGCTGGGGCCTTCGGCTCGGAGCCGGCGCCGGCAGCAGGCCCCGGGCGCGCCAGGGGGCCGTGTGGCTGCGGCCTCCGGGAGGCGGTGGACGGCGTGCGCTTCATCGCAGATCATATGCGGAGTGAGGACGACGACCAGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007517:ENSBTAT00000009892:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.006
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.5=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(54.4=34.6),PF0293211=Neur_chan_memb=PU(86.1=63.0)
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:
AAGTTCGGCTCCCTTCCAAAC
R:
GAGTCATCCGGGTTCTCGTTG
Band lengths:
346-1102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]