MmuALTA1016401-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000027107 | Chrna1
Description
cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle) [Source:MGI Symbol;Acc:MGI:87885]
Coordinates
chr2:73571413-73573369:-
Coord C1 exon
chr2:73573260-73573369
Coord A exon
chr2:73571572-73571608
Coord C2 exon
chr2:73571413-73571571
Length
37 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
CTCTCTTACCCTGACCACAGCGC
3' ss Score
7.79
Exon sequences
Seq C1 exon
CAATGGGTCGATTACAACTTGAAATGGAATCCAGATGACTATGGAGGAGTGAAAAAAATTCACATCCCCTCGGAAAAGATCTGGCGGCCGGACGTCGTTCTCTATAACAA
Seq A exon
CGCAGACGGCGACTTTGCCATTGTCAAATTCACCAAG
Seq C2 exon
GTGCTCCTGGACTACACCGGCCACATCACCTGGACACCGCCAGCCATCTTTAAAAGCTACTGTGAGATCATTGTCACTCACTTTCCCTTCGATGAGCAGAACTGCAGCATGAAGCTGGGCACCTGGACCTATGACGGCTCTGTGGTGGCCATTAACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027107-5-5,5-4-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.3=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(31.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCGGACGTCGTTCTCTATA
R:
TGCTCATCGAAGGGAAAGTGA
Band lengths:
123-160
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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