HsaINT0026585 @ hg19
Intron Retention
Gene
ENSG00000167535 | CACNB3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:HGNC Symbol;Acc:1403]
Coordinates
chr12:49219217-49219552:+
Coord C1 exon
chr12:49219217-49219275
Coord A exon
chr12:49219276-49219442
Coord C2 exon
chr12:49219443-49219552
Length
167 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ATTCTCCACTCCCACCCCAGGAT
3' ss Score
7.94
Exon sequences
Seq C1 exon
GTCACAGACATGATGCAGAAGGCTCTCTTCGACTTCCTCAAACACAGATTTGATGGCAG
Seq A exon
GTAAGCTGCCCTGGCCTGAGGTGGCCTGAGAACCAAGGAGAAGCTCATGGCCTACTTCCAGATGCCTGTAGCTAGTCTTCTCTAAGGGAAGAGTTAGTGGGAGCTGAGTAAGGAGAGGCTGAGGCACAGGTTTAGAAGCAAGCTGTGATTCTCCACTCCCACCCCAG
Seq C2 exon
GATCTCCATCACCCGAGTCACAGCCGACCTCTCCCTGGCAAAGCGATCTGTGCTCAACAATCCGGGCAAGAGGACCATCATTGAGCGCTCCTCTGCCCGCTCCAGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167535-CACNB3:NM_000725:8
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=0.105
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(37.3=100),PF130921=CENP-L=FE(48.7=100)
A:
NA
C2:
PF0062516=Guanylate_kin=PD(31.4=76.2),PF130921=CENP-L=PD(43.6=81.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAGACATGATGCAGAAGGCT
R:
CAATGCTGGAGCGGGCAG
Band lengths:
167-334
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)