RnoINT0036322 @ rn6
Intron Retention
Gene
ENSRNOG00000014698 | Chrnb1
Description
cholinergic receptor nicotinic beta 1 subunit [Source:RGD Symbol;Acc:2349]
Coordinates
chr10:56400967-56401333:-
Coord C1 exon
chr10:56401224-56401333
Coord A exon
chr10:56401076-56401223
Coord C2 exon
chr10:56400967-56401075
Length
148 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGG
5' ss Score
3.87
3' ss Seq
AAAAGATCTTTTCCCTTTAGCAA
3' ss Score
5.41
Exon sequences
Seq C1 exon
GAGTGGACCGACTACAGGTTAAGCTGGGACCCCGCAGAACACGATGGCATCGAGTCTCTCCGTGTCACTGCTGAATCTGTTTGGCTCCCGGACGTGGTGCTGCTGAACAA
Seq A exon
GTAGGGTCTTTCTAAAGCCTGGGCAGGGTTGGGGCATTGAGGGGATTAGGGTAAGCCATGGTGGAGGGAGGGGTTGAACCGTCGGGGAGGGGGCAGGGTCTCTGGAGGACAGATACAGATCCCATATTAAAAGATCTTTTCCCTTTAG
Seq C2 exon
CAATGATGGAAACTTTGACGTTGCCCTGGACATTAATGTCGTGGTGTCCTTTGAGGGCTCTGTGCGCTGGCAACCCCCTGGCCTGTATCGCAGCAGCTGCAGCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014698:ENSRNOT00000019947:4
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=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(16.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(16.4=100)
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:
GAGTGGACCGACTACAGGTTA
R:
CTGGATGCTGCAGCTGCTG
Band lengths:
219-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]