MmuINT0036303 @ mm10
Intron Retention
Gene
ENSMUSG00000026253 | Chrng
Description
cholinergic receptor, nicotinic, gamma polypeptide [Source:MGI Symbol;Acc:MGI:87895]
Coordinates
chr1:87210524-87211036:+
Coord C1 exon
chr1:87210524-87210740
Coord A exon
chr1:87210741-87210902
Coord C2 exon
chr1:87210903-87211036
Length
162 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
TGACTTTATTTCCCCATCAGAGA
3' ss Score
6.91
Exon sequences
Seq C1 exon
GTGTTCCTGAGGCTCCTGCCCCAGCTGTTACGGATGCATGTGCGCCCACTAGCTCCAGCTGCTGTCCAGGATGCCCGGTTCCGACTCCAGAATGGCTCTTCCTCAGGGTGGCCCATCATGGCTCGAGAGGAAGGGGACCTCTGTCTGCCTCGAAGCGAACTCCTCTTTAGGCAAAGGCAGCGCAATGGATTAGTGCAGGCAGTATTGGAGAAGCTAG
Seq A exon
GTGAGGCCCAAGGGGTCCATTCTGACCAGTGAATGCAGCTAGAAGAGCCGGGTACAGCAGCTACGTGCTGGGAGACTGTTCAAGTTGGAGAGAGGGTCCAGGTCTCTGGGGAAAAGTCATATCCTGGTCTGCTCCCTTCCACTGACTTTATTTCCCCATCAG
Seq C2 exon
AGAATGGTCCAGAAGTGAGGCAGAGCCAGGAGTTCTGTGGCAGCCTGAAGCAAGCCTCCCCAGCCATCCAGGCCTGTGTGGATGCCTGTAACCTCATGGCTCGTGCCCGACGCCAGCAGAGTCACTTTGACAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026253:ENSMUST00000027470:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(29.1=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(17.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCTGTTACGGATGCATGT
R:
CTTCAGGCTGCCACAGAACTC
Band lengths:
247-409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types