MmuINT0036305 @ mm9
Intron Retention
Gene
ENSMUSG00000026253 | Chrng
Description
cholinergic receptor, nicotinic, gamma polypeptide [Source:MGI Symbol;Acc:MGI:87895]
Coordinates
chr1:89102650-89103087:+
Coord C1 exon
chr1:89102650-89102789
Coord A exon
chr1:89102790-89103042
Coord C2 exon
chr1:89103043-89103087
Length
253 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
AACTCTCTTTTGTACCCCAGAAT
3' ss Score
6.69
Exon sequences
Seq C1 exon
GGGCCCAGAGCCGCAACCAAGAGGAGCGTCTGCTTGCGGACCTGATGCGAAACTACGACCCCCACCTGCGGCCGGCTGAGCGCGACTCAGATGTGGTCAATGTCAGCCTGAAGCTTACCTTGACCAACCTCATCTCCCTG
Seq A exon
GTGAGCAACAGGAGGCGGGGAATGATGGATATCACACAGGGCCACAGACTTGCTGGGGAAATAAACGAGTGCTGGGGATCTAACCCTAGCACTCGGAACAGCAGAGGGTCCTACAATGGTGTGGGCAGGACTCATGAAACCCCTGGGGCTACGACGAGGTGCGAGGCTGAGGGCCTCTTGGTTCTATTAGTGTCTGGTGGTGGCATCGGACCTCGGGGAGGAAGGTATAGCCTAACTCTCTTTTGTACCCCAG
Seq C2 exon
AATGAACGAGAGGAGGCCCTCACAACTAACGTCTGGATAGAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026253-Chrng:NM_009604:2
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(18.1=83.0)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(14.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGCCGCAACCAAGAGG
R:
CATCTCTATCCAGACGTTAGTTGTGA
Band lengths:
180-433
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: