HsaINT0026473 @ hg19
Intron Retention
Gene
ENSG00000157445 | CACNA2D3
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 3 [Source:HGNC Symbol;Acc:15460]
Coordinates
chr3:54871186-54872675:+
Coord C1 exon
chr3:54871186-54871257
Coord A exon
chr3:54871258-54872594
Coord C2 exon
chr3:54872595-54872675
Length
1337 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TCAATGTTTATTTTCGACAGAGA
3' ss Score
5.71
Exon sequences
Seq C1 exon
CTGACTGATGATCAGGGCCCCGTCCTGATGACCACTGTAGCCATGCCTGTGTTTAGTAAGCAGAACGAAACC
Seq A exon
GTGAGTACAGTCGCTGAGCTTCCTGCTTGATGCTAGGAGGGTGGTTTTCTCAGACCCCCTCTGACTCCAGCTCTGGTGACTTTTGATTTTTAAGCATAGGATGTATGTCATTTTTCCTTATTGTTTGATCTTGCTGTTAGAATCACCAAATCAAAAACAGATGAGAGGAACCCAGGCTGGCATCATTTTAGAGTTGGCAACACCTTTCCAAAGTTTAAGTATTAGAGGACCAGAGGAGGAAAAGCCCCAGAGACCATCCATGATTATGGTGCACTGACCACTCTCATTTATAGTTACCAGCCTTTTATTAGTTTCCTAGGGCTGTTAGGAATGAAGTGCCACAAACTGTGTGGCTTAAAAAAATAGAAATTTCTTCTCTCACAGTTCTAGAGCCTGGAAGTCTGAAATCAAGATGTCAGCAGGGCCATGCTCCCTCTGAAGGTTCTAGGGAAGAATTTCTCCTTGCCTCTTTCAGCTTCTCGGGGCCCCCAGCATTCCTTGGCTTGTGGCAGTGTCACTCCAATCTCTGCCTCTGTTTCCATGTGACCTGTTCCTCTTATATGTCTCTCTGTGTCCTTCCCTGTTGTAAGGAAATCAGTCATGGGATTTAGAGCCCACGCTAAATCCACGATGATTTCATCTCAAGATCCTTAACAATTACGTATGCAAAGATGCTATTTCCAAATAGCATTATATTCTGAGGTTCTGGGTGGACATGAACTTGGGGGGACACTGTTCAACTCACCATAAAGCCTTAAAAAAATGGCCTTTCTGACACTGAAAAGTTTTAGCAAATCACAATGGCTACATGCCTTGGAAAATGGGGCTCCAGAGGCCTATTCCTTCACCTTGGTCCTCAGTTGGTAAAAGTGTTAGGGTTATTATATATTTCTCTTGCTATTTAGACTCTCTCTCCTGGGCACCAGATGGCAGTGTAAATTGAGAAAGCAGTTAACATGCTGTCTTTCCTGTAAAAAGCTTTCATAAGAGAAACTGGTGAACGTTTAGAGCCCTTAGCTGCTGAAACTCTTGTGTTTCTTCAAATCAGTGTTTAATTTTCAAGAGAGGAGAGGGAAGCTATTGTAGTATCTTGGTAGGATTATGCGTTGGGGACTGTAGTAGTTAATGGTTGGCCTGAGAAGCTCTCATTTTACCCAGTAACATTTTGGGTGGAGGGTGGGGGATAGAAGAGACCATTCTTGGAGATATGGGTTAATCCTCAATCTGTATCAGTTTGGGGAAGGCACCAGGCAGACGGTATGTGACTTCTCGTGAGATTCTATTTCTTTTGCCAAGTTAACTTACTGTTATTATAATTCAATGTTTATTTTCGACAG
Seq C2 exon
AGATCGAAGGGCATTCTTCTGGGAGTGGTTGGCACAGATGTCCCAGTGAAAGAACTTCTGAAGACCATCCCCAAATACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000157445-CACNA2D3:NM_018398:15
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:
PF0274313=Cache_1=FE(23.5=100)
A:
NA
C2:
PF0274313=Cache_1=FE(26.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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
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)