MmuINT0036265 @ mm9
Intron Retention
Gene
ENSMUSG00000027950 | Chrnb2
Description
cholinergic receptor, nicotinic, beta polypeptide 2 (neuronal) [Source:MGI Symbol;Acc:MGI:87891]
Coordinates
chr3:89566932-89567287:-
Coord C1 exon
chr3:89567142-89567287
Coord A exon
chr3:89566977-89567141
Coord C2 exon
chr3:89566932-89566976
Length
165 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
GCTGCCCTGTTTTCCTGCAGCAC
3' ss Score
10.14
Exon sequences
Seq C1 exon
GGGTTTTGGGTACTGACACAGAGGAGCGGCTGGTGGAGCATCTCTTGGATCCTTCCCGCTATAACAAGCTGATCCGTCCAGCTACTAATGGCTCTGAGCTGGTGACTGTACAGCTCATGGTATCATTGGCACAGCTCATCAGTGTG
Seq A exon
GTAAGTGTGGGTCTTGAAAATTCTAGTTACAATAGTCAGCCCAGTCAGAAAGGTTTAATACACAAGTTTCCTTAGGTGCTTCCAGGGTGGAAGAGACCAGGGTGGTGGCAGGCCTGAGGACTTGGGTTGGGGCACCTTTTCAGCAGCTGCCCTGTTTTCCTGCAG
Seq C2 exon
CACGAGCGGGAGCAGATCATGACCACCAACGTCTGGCTGACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027950-Chrnb2:NM_009602:2
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(19.9=83.7)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.8=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:
GGGTTTTGGGTACTGACACAGA
R:
ACGTTGGTGGTCATGATCTGC
Band lengths:
178-343
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: