MmuINT0027892 @ mm9
Intron Retention
Gene
ENSMUSG00000020882 | Cacnb1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:MGI Symbol;Acc:MGI:102522]
Coordinates
chr11:97870595-97870992:-
Coord C1 exon
chr11:97870883-97870992
Coord A exon
chr11:97870747-97870882
Coord C2 exon
chr11:97870595-97870746
Length
136 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
TCCCCATCCCCATGCCCCAGCTG
3' ss Score
5.62
Exon sequences
Seq C1 exon
GATTTCCATCACCCGGGTAACAGCTGACATTTCCCTGGCCAAACGCTCCGTCCTCAACAACCCCAGCAAACACATCATCATTGAGCGCTCCAACACGCGTTCCAGCCTGG
Seq A exon
GTGAGCTGCCTGCCTCCTTGCCCCTCCCCTCCCGGGCTGTCAGGGTGGGTGGGATTCGAGGTGCTGGGGAAGCGTCCCTTCTCTCCATTGCCTCCTGGGGGAACCTTACGATCCTCTCCCCATCCCCATGCCCCAG
Seq C2 exon
CTGAGGTACAGAGTGAAATTGAGAGGATCTTCGAGCTGGCCCGGACCTTGCAGCTGGTCGCCTTGGACGCTGACACCATCAACCACCCAGCCCAGCTCTCTAAAACGTCGCTGGCCCCCATCATTGTTTACATCAAGATCACATCTCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020882-Cacnb1:NM_145121:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(20.4=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(27.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTTCCATCACCCGGGTAACA
R:
TGTAAACAATGATGGGGGCCA
Band lengths:
242-378
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: