MmuINT0036293 @ mm9
Intron Retention
Gene
ENSMUSG00000014609 | Chrne
Description
cholinergic receptor, nicotinic, epsilon polypeptide [Source:MGI Symbol;Acc:MGI:87894]
Coordinates
chr11:70428385-70428816:-
Coord C1 exon
chr11:70428710-70428816
Coord A exon
chr11:70428631-70428709
Coord C2 exon
chr11:70428385-70428630
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
CGCTAAGCTCTCTCTCACAGGAA
3' ss Score
7.61
Exon sequences
Seq C1 exon
CAGCCCTCTGCCAGAACCTGGGTGCTGCAGCCCCAGAAATCCGCTGCTGTGTGGATGCTGTGAACTTTGTGGCTGAGAGCACAAGAGACCAGGAAGCCACTGGAGAG
Seq A exon
GTGGGTTGGGAGGTTGAGGCGGAGCAGTGCTAGATGCCCCGCCCTCCAGGCTCCTCCCTCGCTAAGCTCTCTCTCACAG
Seq C2 exon
GAACTGTCCGACTGGGTGCGTATGGGGAAGGCCCTGGACAATGTCTGTTTTTGGGCAGCTTTGGTGCTCTTCAGCGTTGGTTCTACTCTCATCTTCCTTGGGGGTTACTTCAACCAAGTTCCTGATCTCCCTTACCCACCGTGCATCCAACCATGAGCCTGCACTGGCACCCACCTCTCCCCCACCCCCCAAGAAAGAGATTTTGAAAACAGGCCGCTGACAATAAATCTGGTTTGTGAACTTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014609-Chrne:NM_009603:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(15.7=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.5=59.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGAGACCAGGAAGCCACT
R:
ACGGTGGGTAAGGGAGATCAG
Band lengths:
169-248
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: