MmuINT0027902 @ mm9
Intron Retention
Gene
ENSMUSG00000020882 | Cacnb1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:MGI Symbol;Acc:MGI:102522]
Coordinates
chr11:97870883-97871230:-
Coord C1 exon
chr11:97871172-97871230
Coord A exon
chr11:97870993-97871171
Coord C2 exon
chr11:97870883-97870992
Length
179 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TTCCCTGCCTGGTCCTCCAGGAT
3' ss Score
9.75
Exon sequences
Seq C1 exon
GTGACAGACATGATGCAGAAAGCGTTGTTTGACTTCCTCAAGCATCGGTTTGATGGCAG
Seq A exon
GTAGGACCCTGAGAGGTGGCTCGCCACCTGACTGTGGCTCCTTCCATCCACTTGGGGATACACAAGGGACCACTCTGGGATTCTTAGACAGAGACGAGGGTGGCAGGCCTGGAGCCAGTGAGTGGACTGTATGTTCTTGCCCACCCAACCCTTGACCCCTTCCCTGCCTGGTCCTCCAG
Seq C2 exon
GATTTCCATCACCCGGGTAACAGCTGACATTTCCCTGGCCAAACGCTCCGTCCTCAACAACCCCAGCAAACACATCATCATTGAGCGCTCCAACACGCGTTCCAGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020882-Cacnb1:NM_145121:9
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=0.018
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(10.5=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(20.4=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:
GTGACAGACATGATGCAGAAAGC
R:
CTGGAACGCGTGTTGGAGC
Band lengths:
164-343
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: