MmuINT0036258 @ mm10
Intron Retention
Gene
ENSMUSG00000041189 | Chrnb1
Description
cholinergic receptor, nicotinic, beta polypeptide 1 (muscle) [Source:MGI Symbol;Acc:MGI:87890]
Coordinates
chr11:69793884-69794259:-
Coord C1 exon
chr11:69794150-69794259
Coord A exon
chr11:69793993-69794149
Coord C2 exon
chr11:69793884-69793992
Length
157 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGG
5' ss Score
3.87
3' ss Seq
GAAAAATCTCTTCCCTTTAGCAA
3' ss Score
6.05
Exon sequences
Seq C1 exon
GAGTGGACCGACTACAGGTTAAGCTGGGACCCCGCAGAACATGATGGCATCGATTCTCTCCGCATCACTGCTGAATCCGTTTGGCTCCCTGATGTGGTGCTGCTGAACAA
Seq A exon
GTAGGGTCTTTCTAAAGCCTGGGCGGGGTTGAGGCATGAGGGGATTAGGGTAAGCCATGGTGTGTGTGTGTGTGTGTGTGTGTGTGTACCATCGGGGAAGGGGCAGGGTCTCCGGGGGACAGATCCAGATCCCATATGAAAAATCTCTTCCCTTTAG
Seq C2 exon
CAATGACGGAAATTTCGACGTTGCCCTGGACATCAATGTTGTGGTATCTTTCGAGGGCTCTGTGCGCTGGCAACCCCCTGGCCTGTACCGCAGCAGCTGCAGCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041189:ENSMUST00000045971:4
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGGACCGACTACAGGTTA
R:
CTGGATGCTGCAGCTGCTG
Band lengths:
219-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types