HsaINT0026584 @ hg19
Intron Retention
Gene
ENSG00000167535 | CACNB3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:HGNC Symbol;Acc:1403]
Coordinates
chr12:49218946-49219275:+
Coord C1 exon
chr12:49218946-49219026
Coord A exon
chr12:49219027-49219216
Coord C2 exon
chr12:49219217-49219275
Length
190 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
AGTGCCATGCCTTCCCCCAGGTC
3' ss Score
8.52
Exon sequences
Seq C1 exon
GCGGAACATGTTCCCCCATATGACGTGGTGCCCTCCATGCGGCCTGTGGTGCTGGTGGGACCCTCTCTGAAAGGTTATGAG
Seq A exon
GTGAGAGGAGGTCCTTGACCCCAAAGAGTCACCTCTACCAAGCCTGCCACAGGAAGTCCCTAGGGAAAGTGGAAGGGGTGTGTCTCCTCCGTCCAGGGTGTGTATGTGGAGCGCATTGACTCTGGGGCCATGCATGGGGAGGCTGCTTCTCTCCAAAGGGGCCCTTCATCAGTGCCATGCCTTCCCCCAG
Seq C2 exon
GTCACAGACATGATGCAGAAGGCTCTCTTCGACTTCCTCAAACACAGATTTGATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167535-CACNB3:NM_000725:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PU(27.5=93.3),PF130921=CENP-L=PU(2.6=6.7)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(37.3=100),PF130921=CENP-L=FE(48.7=100)
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:
TGTTCCCCCATATGACGTGGT
R:
TGCCATCAAATCTGTGTTTGAGGA
Band lengths:
131-321
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)