BtaINT0038391 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014050 | CHRNB3
Description
cholinergic receptor, nicotinic, beta 3 (neuronal) [Source:HGNC Symbol;Acc:HGNC:1963]
Coordinates
chr27:37179708-37180955:+
Coord C1 exon
chr27:37179708-37179817
Coord A exon
chr27:37179818-37180072
Coord C2 exon
chr27:37180073-37180955
Length
255 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
AGCGAACCGTCTTTCCACAGCGC
3' ss Score
6.9
Exon sequences
Seq C1 exon
GAATGGACAGACCACAAGTTACGCTGGAATCCGGATGAATACGGTGGGATTCATTCCATTAAAGTTCCGTCAGAATCTCTCTGGCTTCCTGACATAGTTCTCTTTGAAAA
Seq A exon
GTAAGTCTCGCAGAAGACAAATCCGCTAGTCCGATGAGGCATGGAAATAGAAAAGCCTGATTGTGCCAAAATAATTAAGAGAAAGGTACAACCTTGATGAGAGAATTGTTCCTTTCGGAAATCTTGTTTGATGCTGTGATAGGAAAGGAATAAAATACAAATAGAACAGTGGTGGGGGGGGGGGTGCGCAGGGGGAGACTGCTAATCTGTGTTAGACTAACCTAGACTAACCGCGAGCGAACCGTCTTTCCACAG
Seq C2 exon
CGCCGACGGCCGGTTCGAAGGCTCGCTCATGACCAAGGCTGTGGTCAGATCGGACGGGACCGTGGCGTGGACGCCTCCCGCCAGCTACAAGAGCTCCTGTACCATGGACGTCACGTTCTTCCCGTTCGACCGGCAGAACTGCTCCATGAAGTTCGGGTCCTGGACTTACGACGGGACCATGGTGGACCTCGTCCTCACAGACGAGAACGTGGACCGGAAGGACTTCTTCGACAACGGAGAGTGGGAGATCCTGAACGCCAAGGGCACGGCCGGGGGCCGGAGGCACGGCGCCTACTGGTACCCGTTCATCAGCTACTCCTTCGTGCTGCGCCGCCTGCCCCTGTTCTACACGCTCTTCCTCATCGTCCCGTGTCTGGGGCTGTCCTTCCTGACCGTGCTGGTCTTCTACTTGCCTTCCGACGAGGGCGAGAAGCTCTCCTTATCCACCTCTGTCCTGGTTTCCCTCACGGTCTTCCTCCTGGTGATTGAGGAGATCATCCCGTCTTCCTCCAAGGTCATCCCGCTCATCGGGGAGTACCTCCTGTTCATCATGGTCTTCGTCACCCTGTCCATCATCGTCACCGTGTTTGTCATCAACGTCCACCACAGATCTTCCTCAACCTACCACCCCATGGTCCCCTGGGTTAAGCGGCTCTTTCTGCAAACCCTTCCTAAGTTACTCTGCATGAAGGACCACGTGGATCGCTACTCTCTCCCAGGTAAAGAGGAGAGGAAACCCGCCCTGAGAGGTCAAGTCCTCGAAAGAAGGAAACAAAAGCAGATGAGTGATGGAGAAAAAGTTCTGGTTGCTTTCCTGGAAAAGGCGGCGGATTCCATCAGATACATTTCCAGCCACGTGAAGAAGGAGCATTTCATCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014050:ENSBTAT00000039752:5
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=0.003
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.1=38.3),PF0293211=Neur_chan_memb=WD(100=48.5),PF0293211=Neur_chan_memb=PU(61.6=18.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGATGAATACGGTGGGATT
R:
AAGAAGTCCTTCCGGTCCACG
Band lengths:
308-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]