MmuINT0027922 @ mm10
Intron Retention
Gene
ENSMUSG00000003352 | Cacnb3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:MGI Symbol;Acc:MGI:103307]
Coordinates
chr15:98639814-98640454:+
Coord C1 exon
chr15:98639814-98639936
Coord A exon
chr15:98639937-98640338
Coord C2 exon
chr15:98640339-98640454
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:ENSMUST00000003442:3
Average complexity
IR
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)
A:
NA
C2:
NO
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
- 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