HsaINT0026479 @ hg19
Intron Retention
Gene
ENSG00000157445 | CACNA2D3
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 3 [Source:HGNC Symbol;Acc:15460]
Coordinates
chr3:54913377-54914890:+
Coord C1 exon
chr3:54913377-54913438
Coord A exon
chr3:54913439-54914822
Coord C2 exon
chr3:54914823-54914890
Length
1384 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
TGCTTTGTCTCTCTGCACAGTTT
3' ss Score
9.71
Exon sequences
Seq C1 exon
AAACGGGTTTTGGTGATGACAAATGACTACTATTATACAGACATCAAGGGTACTCCTTTCAG
Seq A exon
GTAGAGCTGACCATAATACATGGACATTCCATCAGACCCATCAGTTGTGTTTGTACAAAACCTGCTGACACTCTCAGAGCTCATCATCTGAAGATAACCAAACACCCTGCCAAAAGGCTGGAAAGAGTGAGGAAGGGGCTTTTCCCAGGCTGCTTTTGTTTTCCAGAAGGGGGGGAGATGGTTCAGGCTCACCTAGGAGAACTCACTCAATCTGCCATGGCTTTGCATCTCATTGTCAAGCAAATATGCTTTGGGGGTTCCCGCTAAGGGTGAAGACAAGTGCAGAGGGTTACCAGGGTCCTTAACTATTGAACTTGCTGCTTTGTGAGTTCCATTTCACCTTTTATTTCCATGACCAAAAAAACAATCCTTCAAACCTGGAGGTGGCATATCCATTCCTACATGTTGTGCCTCTGTTTCCATTTCTCTGAACTGTCCTTGTGTGCTTGTCTACTTTTGAATCCTGTTGTTTCTCTTTGTAACAGTCCTGAAAAATGGCTTTGCCTCATTGGCTGCTTTCAGATGTGTATGTAGCATTCTAAAGTTTCCCACTACTATTAACTTAGTGTTGTAATTCATTTTGTAAAAAATTATTTCAGTAAGCCTGCTTCATATTCCTGAACTGGCGTCTCAGAGCTAAGGAGAGAAGGAGTTTACTGACTGTAGAATAATCTGAAAAATAAATTCTAGCATTGTTGTCCTAAACTGCCAAGGATCATGGGTGGATTCCATGTGGAACCAGGAGCAAATAAGGACCACATGAGCTGCTAAGTGGGTTTGCCAAATAGTCTCTCTAACGTAAGGGACTATGTTTTAAAAACATAGTCTCTTGCTTTTGATAAAAACGGAATGGATCTTAAATCAAGCCAGTGAGTGTGAAAAACCTATTAGACTAGGGAGAGGATTGGGCAAAGAAGCCTGCAACACAGTAATGTGGTTACACTCATGTAGTAGTGGAAGTTTTTGTTTTTGCCCTTGAGCAGGGGTCAATTTCCCGAGTCCCAAAGTCTAGGGGCTGGAGAGACCCATCTCTGGCTGAATGCAGGACAAGGGTGTATAAAGAGCAGGGCTCATGGTCCTTGGGAGGGCATCTGAGAGAAGGGCTTGCTGGAAGGGCGAGCAGTTTGCCACAACTCTGAAAACACAAAGAGTAGCCAATTGCTGCTGGCATTTCTGATCAGAAGTTACTTTGAAGCAGCTGATTGAACCTAAGAAAAACCAACACCAGTGATAATCAGTGGGGTTTTGAAAGTAAACAGTTGGAAAAATTGTTGACAGATCATAAAATGGAAATGTGAAAAATGGAAAATTAAAAAATGTTAGCCCACAAGTCTATTCGAGTCGATGCCAGGGATTTCAAGATTTGCTTTGTCTCTCTGCACAG
Seq C2 exon
TTTAGGTGTGGCGCTTTCCAGAGGTCATGGGAAATATTTCTTCCGAGGGAATGTAACCATCGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000157445-CACNA2D3:NM_018398:20
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:
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:
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
- 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)