MmuINT0036294 @ mm9
Intron Retention
Gene
ENSMUSG00000014609 | Chrne
Description
cholinergic receptor, nicotinic, epsilon polypeptide [Source:MGI Symbol;Acc:MGI:87894]
Coordinates
chr11:70432127-70432397:-
Coord C1 exon
chr11:70432255-70432397
Coord A exon
chr11:70432172-70432254
Coord C2 exon
chr11:70432127-70432171
Length
83 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CAGGCTTCTTTCTGTTGTAGAAC
3' ss Score
9.11
Exon sequences
Seq C1 exon
GCAGAAGCCAGGGAAAGAATGAAGAGCTTAGCCTGTATCACCATCTCTTCGACAATTATGATCCAGAATGCCGGCCAGTTAGGAGACCTGAGGACACTGTCACCATCACCCTCAAGGTCACCCTAACCAACCTCATCTCACTG
Seq A exon
GTAAGACCTTCCCCCAATTCTAATCCTATACCCTCACTTCTACCCCCTAACTCCTGGCTTCAGCAGGCTTCTTTCTGTTGTAG
Seq C2 exon
AACGAGAAAGAAGAAACTCTGACCACCAGTGTCTGGATTGGCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014609-Chrne:NM_009603:2
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=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(18.0=81.2)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(12.6=100)
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:
GCAGAAGCCAGGGAAAGAATGA
R:
CAGACACTGGTGGTCAGAGTT
Band lengths:
178-261
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: