MmuINT0036309 @ mm9
Intron Retention
Gene
ENSMUSG00000026253 | Chrng
Description
cholinergic receptor, nicotinic, gamma polypeptide [Source:MGI Symbol;Acc:MGI:87895]
Coordinates
chr1:89104783-89105790:+
Coord C1 exon
chr1:89104783-89104880
Coord A exon
chr1:89104881-89105589
Coord C2 exon
chr1:89105590-89105790
Length
709 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TAGTAAAGTTCTCCCCACAGAGA
3' ss Score
5.32
Exon sequences
Seq C1 exon
ATCCCAGACTTACAGCACCAGTGAGATCAACTTGCAGCTGAGCCAGGAGGATGGGCAAGCCATTGAGTGGATCTTCATTGACCCGGAGGCTTTCACAG
Seq A exon
GTAACCCCAGCTAGGAGCCCCTGCCCGGATTGAGGCTATGCCCCAACCCCAATACTCTTCAAGGTGAAAACTACAGTGTATCCTGGAATATGGCTTTCAAAAGGTCTCAACAGAAGTCCAGACATGGTGACACACATACATGATCCCAGCCCCCCTGGAGGATTGAAAGTTTGAGGCTAGCCTGGCTACACAATGAGACTGTCTTTAAAGAAAAACGCAGGAGGGCTGGGAAGATGGCTCCATGGGGGTAAAAGCACTTACTGCACATATGTGAAGACCAGAATTGAATGCCCAGAATTCACATAAATGCTGTTAGAAATGGGAGCCTACCTGAAATTCCAGCACAAGTCAGATAGAGACAAAGGATTTCTAGGGCAAAGCTCTGGGTCCAAGCGACAGACCCTGCCTTGGCATAAAAGGTGAAGAGTGTCTGAGGAAGACACCTGATGCTGAATTCTGGCTTCCACGTCTGTACACACACACACACACACACACACACACACACACACATGCACACACATACATGTGAGTATATGCATACATGTGTGTATATGCATACACACGCATGCACACATACACACCGAAAAGGATCCAGGGAAGTTCTGACTCTTCCTATGATACTTACTCTAGTTTTGGGAGGGGAGATCAATATTCAATCTCCCACCCCACTTGTGTCACTTTGTGATGCTTAGTAAAGTTCTCCCCACAG
Seq C2 exon
AGAATGGGGAGTGGGCCATCCGGCACCGACCGGCTAAAATGCTCCTGGACTCCGTGGCTCCTGCAGAGGAGGCGGGCCACCAGAAGGTGGTGTTCTACCTGCTTATCCAGCGCAAGCCCCTCTTCTACGTCATCAACATCATCGCCCCCTGTGTGCTCATCTCCTCAGTCGCCATCCTCATCTACTTCCTTCCTGCTAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026253-Chrng:NM_009604:6
Average complexity
IR-C
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=PD(3.2=8.8),PF0293118=Neur_chan_LBD=PU(45.2=97.1)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(18.1=57.4),PF0293211=Neur_chan_memb=PU(8.5=30.9)
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:
TCCCAGACTTACAGCACCAGT
R:
AGCAGGAAGGAAGTAGATGAGGA
Band lengths:
294-1003
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: