MmuINT0036259 @ mm9
Intron Retention
Gene
ENSMUSG00000041189 | Chrnb1
Description
cholinergic receptor, nicotinic, beta polypeptide 1 (muscle) [Source:MGI Symbol;Acc:MGI:87890]
Coordinates
chr11:69606967-69607494:-
Coord C1 exon
chr11:69607386-69607494
Coord A exon
chr11:69607115-69607385
Coord C2 exon
chr11:69606967-69607114
Length
271 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTTC
5' ss Score
-0.25
3' ss Seq
GTGTCTTCCCCTCCATCCAGGTC
3' ss Score
12.13
Exon sequences
Seq C1 exon
CAATGACGGAAATTTCGACGTTGCCCTGGACATCAATGTTGTGGTATCTTTCGAGGGCTCTGTGCGCTGGCAACCCCCTGGCCTGTACCGCAGCAGCTGCAGCATCCAG
Seq A exon
GTTTTCAAGCTTTTGTCTGACCTCAGGCTTCCTGACTCCCCAGCTACTCCCAATCCAGTGCCACCGTTCCTCCTGACCCAAACCTCTCGGTTGTCTGCCCTGACTTTCCACTGCCCTGTATCCTTGCTTTGGGATTCTGCCTTCTTCAGAGGTTGCCTGCCATATTTCTGATTCCCTTCTCCTTTGTAACCCGAGTCCAGTGACCTTCCAAACTCCCCTAGTCCTTCCTTGCCAGGTCTTTGGCAGCTCCAGTGTCTTCCCCTCCATCCAG
Seq C2 exon
GTCACCTACTTCCCCTTTGACTGGCAGAACTGCACCATGGTGTTTAGTTCCTACAGCTATGACAGCTCTGAGGTCAGCCTGAAGACGGGCCTGGATCCTGAAGGAGAGGAGAGGCAGGAAGTCTACATTCATGAAGGGACCTTCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041189-Chrnb1:NM_009601:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.060
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(16.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(22.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGACGGAAATTTCGACGT
R:
AAGGTCCCTTCATGAATGTAGACT
Band lengths:
252-523
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: