HsaINT0026496 @ hg38
Intron Retention
Gene
ENSG00000157445 | CACNA2D3
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 3 [Source:HGNC Symbol;Acc:HGNC:15460]
Coordinates
chr3:55073445-55073859:+
Coord C1 exon
chr3:55073445-55073557
Coord A exon
chr3:55073558-55073776
Coord C2 exon
chr3:55073777-55073859
Length
219 bp
Sequences
Splice sites
5' ss Seq
GGTATATCC
5' ss Score
-11.78
3' ss Seq
ATGCCTTAACTACAGTCAACATA
3' ss Score
-13.59
Exon sequences
Seq C1 exon
GTCCTTTGTCATCCAGCAAATCCCAAGCAGCAACCTGTTCATGGTGGTGGTGGACAGCAGCTGCCTCTGTGAATCTGTGGCCCCCATCACCATGGCACCCATTGAAATCAGGT
Seq A exon
ATATCCTTTTGTGTGCAGGTCCACTCACTACCACGGAAACCAGTAAGGGGTATCAGTGGTAAGGAAACCTGGGGGAGAAATATTAGAGAAGGAAAATTACATCCTTTCCACTGTTGGAGAGAGAGAGTAGTTAAGAGAGTTGTCATTGCCAAATTTTGACCTCTGAAATGCAGAGTAGAAAAAAGCAATCCTTGGAAACATGCCTTAACTACAGTCAAC
Seq C2 exon
ATAATGAATCCCTTAAGTGTGAACGTCTAAAGGCCCAGAAGATCAGAAGGCGCCCAGAATCTTGTCATGGCTTCCATCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000157445:ENST00000474759:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.036
Domain overlap (PFAM):
C1:
NO
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:
GTCCTTTGTCATCCAGCAAATCC
R:
CTCAGGATGGAAGCCATGACA
Band lengths:
196-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development