MmuINT0027928 @ mm10
Intron Retention
Gene
ENSMUSG00000003352 | Cacnb3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:MGI Symbol;Acc:MGI:103307]
Coordinates
chr15:98641616-98642090:+
Coord C1 exon
chr15:98641616-98641725
Coord A exon
chr15:98641726-98641938
Coord C2 exon
chr15:98641939-98642090
Length
213 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
AAACTGCTCCCCTTCCTTAGCTG
3' ss Score
6.23
Exon sequences
Seq C1 exon
GATCTCCATCACACGCGTCACGGCCGACCTCTCGCTGGCCAAGCGCTCTGTGCTCAACAATCCTGGCAAGAGGACCATCATTGAGCGCTCCTCCGCCCGCTCCAGCATTG
Seq A exon
GTGAGGAGTCCTTTGTTCCTGGTTCTCTGCCTACTTGATGCTACTGCAAACCTGAACCTCCTTGTCTTTTTGCCCACGACCTACCACCTGCCTCAAGTTCTGCCCCCACACCCCCCTTGCCCAGTCCCCTGCCTATCCAGGCTTGCTTGCATTGTAGCAGCTCTGGCTGTAAGCAGTGCCCAGAGCCCCTCGTAAACTGCTCCCCTTCCTTAG
Seq C2 exon
CTGAAGTGCAGAGTGAGATTGAGCGCATATTCGAGCTGGCCAAATCCCTGCAGCTAGTGGTGTTGGATGCTGACACCATCAACCACCCAGCACAACTTGCCAAGACCTCACTGGCTCCCATCATCGTCTTTGTCAAAGTGTCCTCGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000003352:ENSMUST00000003442:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTCCATCACACGCGTCAC
R:
TTGGCGAGGACACTTTGACAA
Band lengths:
260-473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types