MmuINT0036222 @ mm9
Intron Retention
Gene
ENSMUSG00000032303 | Chrna3
Description
cholinergic receptor, nicotinic, alpha polypeptide 3 [Source:MGI Symbol;Acc:MGI:87887]
Coordinates
chr9:54871953-54872234:-
Coord C1 exon
chr9:54872095-54872234
Coord A exon
chr9:54871998-54872094
Coord C2 exon
chr9:54871953-54871997
Length
97 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
ACTTCAATCTCACTTTCTAGGAT
3' ss Score
10.92
Exon sequences
Seq C1 exon
TGGCCAGCGCCTCGGAAGCTGAGCACCGCCTGTTCCAGTACCTGTTTGAAGATTACAACGAGATCATCCGGCCGGTGGCTAACGTGTCCCATCCTGTCATCATCCAGTTTGAGGTGTCTATGTCTCAGCTGGTGAAGGTG
Seq A exon
GTAAGTGCTGGGGCCACACGATGTGCCCCTGGGGTTCTAGGGGAGTCTTCTGCCTTATTTTGGTCAGTCACCTGTCAACTTCAATCTCACTTTCTAG
Seq C2 exon
GATGAAGTAAACCAGATCATGGAAACCAACCTGTGGCTGAAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032303-Chrna3:NM_145129:2
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(18.8=83.0)
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:
GCCTCGGAAGCTGAGCAC
R:
CCACAGGTTGGTTTCCATGATCT
Band lengths:
168-265
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: