BtaINT0038340 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002252 | CHRNA2
Description
cholinergic receptor, nicotinic, alpha 2 (neuronal) [Source:HGNC Symbol;Acc:HGNC:1956]
Coordinates
chr8:75883934-75884572:-
Coord C1 exon
chr8:75884421-75884572
Coord A exon
chr8:75883979-75884420
Coord C2 exon
chr8:75883934-75883978
Length
442 bp
Sequences
Splice sites
5' ss Seq
GTGGTGCGT
5' ss Score
6.46
3' ss Seq
TCTCTCCCGCTGCTGGTCAGGAT
3' ss Score
4.84
Exon sequences
Seq C1 exon
TATCCTCGAAGAGGGCCCCCCACACCCAAGCTGAGGACCGCCTCTTCAAACACCTCTTTAGGGGCTACAACCGTTGGGCGAGACCGGTGCCCAACACCTCGGACGTGGTGATCGTGCGGTTTGGGCTGTCCATCGCCCAGCTCATCGATGTG
Seq A exon
GTGCGTCTGTCCTACCATCTTTCCCCCTTGGGATCAGCCCCGGACATGGACCCCTTTCCAGGGCTCCTCTGTTCCTCCCCATCTCCAGCCCTCCCAGCCCACCTCAGTCAGAGCATCACCCTTCAGCGTCACAGGTATTCAGTCTCCCTCCCACTCTCAGCCCTGGAGCCCCTCCAGGGAGGGCGTTGATTGGCAGCAGTGGGTTTTCTAAATGCCCTACTTGTGTCACCTGGTATAAGCCCAGAGGACCCAGAGGCCTGTGTGATCCTGAAGAATCTGAGTGAGGAGGGCAGTATCAGGAGGGGTGGAGGGCGGGCTGGACTTGGGGCATCATGTCAAAGCTTCTTTGGCGAGTGGGATCCTGAATCAGCTCCTCCCACTCTGCCCTGTTTTCTGGGACTCGCTCCTCAGTCTAACTGCTTTCTCTCCCGCTGCTGGTCAG
Seq C2 exon
GATGAGAAGAACCAAATGATGACTACCAATGTCTGGCTAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002252:ENSBTAT00000002910:2
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=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(18.8=76.5)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.8=100)
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:
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]