MmuINT0036306 @ mm9
Intron Retention
Gene
ENSMUSG00000026253 | Chrng
Description
cholinergic receptor, nicotinic, gamma polypeptide [Source:MGI Symbol;Acc:MGI:87895]
Coordinates
chr1:89103043-89103334:+
Coord C1 exon
chr1:89103043-89103087
Coord A exon
chr1:89103088-89103224
Coord C2 exon
chr1:89103225-89103334
Length
137 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
ACTGTCCTCTTCATCCACAGCAA
3' ss Score
10.33
Exon sequences
Seq C1 exon
AATGAACGAGAGGAGGCCCTCACAACTAACGTCTGGATAGAGATG
Seq A exon
GTAAGACGCCACCTGCCGTATTGTTCTGCTTACTGCGGCTGCCCCACCCACACACCTCAACCTCTTGGTCCCTCTCTGCTGGCTTGCGGTTCTCCAGCCTTGTGAAGAGGCCGGGCAACTGTCCTCTTCATCCACAG
Seq C2 exon
CAATGGTGCGACTATCGCCTGCGCTGGGACCCAAAAGACTACGAAGGCCTGTGGATATTGAGGGTGCCATCTACTATGGTCTGGCGGCCAGATATCGTCCTGGAGAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026253-Chrng:NM_009604:3
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(14.7=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(37.9=100),PF0293118=Neur_chan_LBD=PU(0.1=0.0)
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:
AATGAACGAGAGGAGGCCC
R:
TGTTCTCCAGGACGATATCTGGC
Band lengths:
154-291
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: