MmuINT0036296 @ mm9
Intron Retention
Gene
ENSMUSG00000014609 | Chrne
Description
cholinergic receptor, nicotinic, epsilon polypeptide [Source:MGI Symbol;Acc:MGI:87894]
Coordinates
chr11:70431657-70432021:-
Coord C1 exon
chr11:70431912-70432021
Coord A exon
chr11:70431813-70431911
Coord C2 exon
chr11:70431657-70431812
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
GAAAAGCTTGGTTTCCACAGTAT
3' ss Score
2.25
Exon sequences
Seq C1 exon
GACTGGCACGACTATCGGCTCAACTACAGCAAGGACGATTTTGCAGGTGTAGGAATCCTCCGGGTCCCTTCAGAACATGTATGGCTGCCAGAGATTGTTCTAGAAAACAA
Seq A exon
GTGAGGATCACCCAAGAGGGCAGGCTGCAAAGGGAACTGGCTTTGGGGGATTTGGTTGGTGAAGGAGGTTCAGACATGTGAAAAGCTTGGTTTCCACAG
Seq C2 exon
TATTGATGGGCAGTTTGGAGTGGCCTACGACAGCAATGTTCTAGTCTATGAGGGAGGCTATGTGAGCTGGTTGCCCCCAGCCATCTACCGCAGCACCTGCGCAGTGGAGGTCACCTATTTCCCCTTTGACTGGCAGAACTGCTCTCTCATTTTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014609-Chrne:NM_009603:4
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=FE(16.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(24.0=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:
ATGGCTGCCAGAGATTGTTCT
R:
AGAGAGCAGTTCTGCCAGTCA
Band lengths:
177-276
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: