MmuINT0027921 @ mm9
Intron Retention
Gene
ENSMUSG00000003352 | Cacnb3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:MGI Symbol;Acc:MGI:103307]
Coordinates
chr15:98469919-98470367:+
Coord C1 exon
chr15:98469919-98470041
Coord A exon
chr15:98470042-98470244
Coord C2 exon
chr15:98470245-98470367
Length
203 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
CTGATGATCAAATTCCCCAGCAC
3' ss Score
3.57
Exon sequences
Seq C1 exon
GGTTCAGCCGACTCCTACACCAGCCGCCCCTCTCTGGACTCAGACGTCTCCCTGGAGGAGGACCGGGAGAGTGCCCGGCGAGAAGTGGAGAGTCAGGCTCAGCAGCAGCTGGAAAGAGCCAAG
Seq A exon
GTATGCCTGCTGGCAGGCAGGGGGTCAGGCTGGGTGCAAGCCTGTGCAGGACCTTGGGACCCCAGGGTCATGTCAGGGTGTACTTATGTGTGGAAAAGTGTATGTCTGTAGCAGGCAGTAGCCTTCTTGTCTGGGGCTTCTGCCTCCCCGTGAGGTACTCTGAGGCATCTGTCTCTCATTGCCCTGATGATCAAATTCCCCAG
Seq C2 exon
CACAAACCTGTGGCATTTGCTGTGAGGACCAATGTCAGCTACTGTGGGGTTCTGGATGAGGAGTGCCCGGTCCAGGGCTCTGGAGTCAACTTTGAGGCCAAAGATTTTCTGCACATTAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000003352-Cacnb3:NM_007581:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.878 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PU(93.0=97.6)
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PD(2.3=2.4),PF0001823=SH3_1=PU(44.2=46.3)
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:
GGTTCAGCCGACTCCTACACC
R:
CTTTAATGTGCAGAAAATCTTTGGCC
Band lengths:
244-447
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: