MmuINT0027919 @ mm10
Intron Retention
Gene
ENSMUSG00000003352 | Cacnb3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:MGI Symbol;Acc:MGI:103307]
Coordinates
chr15:98642309-98642651:+
Coord C1 exon
chr15:98642309-98642404
Coord A exon
chr15:98642405-98642501
Coord C2 exon
chr15:98642502-98642651
Length
97 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
CCCATGCCTTCTCTCTCCAGGAG
3' ss Score
11.83
Exon sequences
Seq C1 exon
GTACTGCAGCGACTGATCCGCTCCAGGGGAAAGTCACAGATGAAGCACCTCACTGTACAGATGATGGCGTACGATAAGCTGGTTCAGTGCCCACCC
Seq A exon
GTGAGTGCTTAGGGTCAGCTGCGACCACGCCCTATCCCAGGGTGCAGCTGCAGAGTGGCCATGGAGAAGCCAACGTCCCCATGCCTTCTCTCTCCAG
Seq C2 exon
GAGTCATTCGACGTGATTCTGGATGAGAACCAGCTAGAAGATGCCTGTGAGCACCTGGCTGAATACTTAGAGGTTTACTGGCGAGCGACCCACCACCCAGCACCGGGCCCCGGACTGCTGGGTCCGCCTAGTGCCATCCCTGGACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000003352:ENSMUST00000003442:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(17.1=100)
A:
NA
C2:
PF0062516=Guanylate_kin=PD(13.8=50.0)
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:
ACGATAAGCTGGTTCAGTGCC
R:
AAGTCCAGGGATGGCACTAGG
Band lengths:
173-270
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