MmuINT0027922 @ mm9
Intron Retention
Gene
ENSMUSG00000003352 | Cacnb3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:MGI Symbol;Acc:MGI:103307]
Coordinates
chr15:98470245-98470885:+
Coord C1 exon
chr15:98470245-98470367
Coord A exon
chr15:98470368-98470769
Coord C2 exon
chr15:98470770-98470885
Length
402 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
CTCTTCTCGTTCCCTCCCAGAAG
3' ss Score
9.01
Exon sequences
Seq C1 exon
CACAAACCTGTGGCATTTGCTGTGAGGACCAATGTCAGCTACTGTGGGGTTCTGGATGAGGAGTGCCCGGTCCAGGGCTCTGGAGTCAACTTTGAGGCCAAAGATTTTCTGCACATTAAAGAG
Seq A exon
GTAATGAACCTTATTCTCCCCAGAAGCCTACTCCTGCTTGCAGTCCCAGGCCCCAGGGCCTCTTTAGTTCTGTATCTAAAATAGTTCCCCAGGCCCTCCAGTTTCATCTGTGTGCACACCTGGATGCCCCCTCACTCAGGACCCGATTCCAAGGTTCCCACCATCCTCAGACCTGGCTTGGTCCTGAGTTCTGTGTCTAAGTGGGAGGGTAGAGTTACTAACCAACCAGCAGATTCCACACCTGGAAGCACAACAGCATGAGGCTTGAACCTGGCTGCCCTGTTCTGTGATGCCATTCCACACACTCTGGCCCTTCCTCTGCCTTCCTGGTGCCAGCCTCCCAGAGTCCTCCCTGAGCAAGCACCTCTCACGCAGCTCCTCCCTCTTCTCGTTCCCTCCCAG
Seq C2 exon
AAGTACAGCAATGACTGGTGGATCGGGAGGCTAGTGAAAGAGGGCGGAGACATCGCCTTCATCCCCAGCCCCCAACGCCTGGAGAGCATCCGGCTCAAACAGGAACAGAAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000003352-Cacnb3:NM_007581:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.231
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.3=2.4),PF0001823=SH3_1=PU(44.2=46.3)
A:
NA
C2:
PF0001823=SH3_1=PD(51.2=56.4)
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:
ACAAACCTGTGGCATTTGCTG
R:
CTGGCCTTCTGTTCCTGTTTGA
Band lengths:
238-640
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: