MmuINT0027918 @ mm9
Intron Retention
Gene
ENSMUSG00000003352 | Cacnb3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:MGI Symbol;Acc:MGI:103307]
Coordinates
chr15:98472370-98472835:+
Coord C1 exon
chr15:98472370-98472521
Coord A exon
chr15:98472522-98472739
Coord C2 exon
chr15:98472740-98472835
Length
218 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CTCTGCCCTTCCCCCGTCAGGTA
3' ss Score
11.62
Exon sequences
Seq C1 exon
CTGAAGTGCAGAGTGAGATTGAGCGCATATTCGAGCTGGCCAAATCCCTGCAGCTAGTGGTGTTGGATGCTGACACCATCAACCACCCAGCACAACTTGCCAAGACCTCACTGGCTCCCATCATCGTCTTTGTCAAAGTGTCCTCGCCAAAG
Seq A exon
GTAAGTGAACTGGGTCACTGGGGTCCCCTAGATGTCCCCTAGAATACAGTGCACCTCTGCTTGGGTCCTGCCTGGAGTGACCAGCTCCTTTTCCTGACATCCCTCCTCACCTGGTACTAATGTCCTACCACGAGTTGGGAATTGTGCCTAATTCCTAGACCCAGTTCTCACCAGAGCCCCGAGAAACGCCACGCCCATCTCTGCCCTTCCCCCGTCAG
Seq C2 exon
GTACTGCAGCGACTGATCCGCTCCAGGGGAAAGTCACAGATGAAGCACCTCACTGTACAGATGATGGCGTACGATAAGCTGGTTCAGTGCCCACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000003352-Cacnb3:NM_007581:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(27.6=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.1=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:
TGAAGTGCAGAGTGAGATTGAGC
R:
GTGGGCACTGAACCAGCTTAT
Band lengths:
245-463
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: