HsaINT0026532 @ hg19
Intron Retention
Gene
ENSG00000151062 | CACNA2D4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:HGNC Symbol;Acc:20202]
Coordinates
chr12:1904832-1906701:-
Coord C1 exon
chr12:1906584-1906701
Coord A exon
chr12:1904947-1906583
Coord C2 exon
chr12:1904832-1904946
Length
1637 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGA
5' ss Score
6.42
3' ss Seq
ACTCCCTTTCTTTGCTGCAGGGT
3' ss Score
10.68
Exon sequences
Seq C1 exon
CCCACAAACACAAGAAGCAGGACCCGCTGCAGCCCTGCGACACGGAGTACCCCGTGTTCGTGTACCAGCCGGCCATCCGGGAGGCCAACGGGATCGTGGAGTGCGGGCCCTGCCAGAA
Seq A exon
GTAAGACCGCAGGGCGGCGCCGCCCGTCCCGCCACACTCCTCCCGCCCTCGGCAAGGCGGAAGTGCGGGCAGGGCCCCGGAACCCCCGGGAAACGGCTCCACAGCCGGGAGGAGGGGATGCGTCTAAGTGCAGAGCCCACGCTCCCGGGGTCTTCCCCCGCCGTCCTCAGTGGAGGAGACACGCAGGAGGCGGACGGTCTGAGGCGGGCAGGACGGCTGGGGACCGGGACAGCCGGGATGGGGAGAGGTGGTCCCGAGGCCTGACCCTGTGTGTCGAGCCCACCCCGCCGAGGCCGCAGCCGTGACCCCACGGCGTCTCTGGGCGAGTGGGCCCTTCGGCGGGTCTCCCCCAGCCCTGCTCAGGCGGTGCCCAGGGCGGTGCCAGTGCCCGCGCCTGAGCTGCGTGGGGAGAACTTGGAAGGCAGAGGGAGTGTGAGAAGAGAAGGCCGGAAGTGTGCGATGTCCTCGGGTCGCTGGGAGCCCCGCGGGCAGCCTCTGTCAGGCTTCCTGCTGTGTGGAAGCCGCTAGTTATAACCCGCCCTGGCCCCGGGGAGGCAGGGAGGCCGCGCGGAAGGGTCTCTCCTGCTGACCCCCCGCACCCAAGCCCGGGAGGACCCCCACGCTGGGAATGCGGCGGCCTCCTCGAGGGTCGCCTCAGCCAGACGTGCCGCTCGCCAGGCGGTCCCTAGACCCCCGGGCCCGTGGCACACCATTTAACAGTGCGGCACCTGCGGCGCTGGCATCGGGGCTCCCTTCTCCCCCACTCCCTGCGCGTCGTGCTGCGCGGGTTTCACCCCGGGTTCTGTGCAGCGTTGAGGGCTGGGGTTAGCGTTCCCTGTGCACTTGTCGCAAAGGCTCGGTGCGAGGATAGAGCCAGCGGGCTCCGGAGTGAAGCGAGGGCTTCAGAGTAGACACTCCTGAATTGAAAACTGGCTCTGCGCTCCCCCGCTTATGACCGTGGGCAAGTGACTTCGCCTCCTCTAGTCTCCATTCTCTCATCTGCAAAATGGGCACAACACCAGCCTCATACAGAGCCGTGAAGGCTGAGAGTATACACGGCTGTGGTGTGCACGTTGGGTGTGTGAGACCGCCCATCCCAGGGGAGGCGCTCGGTAGGCGGCCGCTGGGACTGCTGGGAAGGCCGTGGGCCTGGCGGGCGGGCTCCGCCCCACTCCGCGCCACTCCTCGCAGGGCGGCCTCGCCGAGCGCGGGGCCACTGCGCCACCTGGTGGCCAAGCTCCAGCGCTGCCGCTTCGCCCGGGCCTGCCCCCGCCACCCTCACCCAGAGCAAGTGTTGCCTCGCCCGCCCATTTGCTCCGGACGGTCTTGATTTACGCCTGTCGTCCCTGCATATATTAATAGCAACTCTGCACTCTCCAAAGCGGCCCAGTTTGGACTTCCTCACTGTCTCCAGTCTGCTAGGAAAGGAAATGCAGCAGCAAAGGCTTGTGAGCAAAGCCAGTAGGACTGAGCCATCTGCCAGGCCCGTTCCCTTAGCTGCCCCGACCCGCCCTGCCTCATGGTTCCGGGCTTCCCTGCCACCCTAACTCCACACTAAAGTCTCCAGAAGTTCCTTCCCTAGAAGCCCTTCTCGTGGTCGCCACGGAGCCATCCTCGACTCCCTTTCTTTGCTGCAG
Seq C2 exon
GGTATTTGTGGTGCAGCAGATTCCCAACAGTAACCTCCTCCTCCTGGTGACAGACCCCACCTGTGACTGCAGCATCTTCCCACCAGTGCTGCAGGAGGCGACAGAAGTCAAATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000151062-CACNA2D4:NM_172364:35
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CCCACAAACACAAGAAGCAGG
R:
TTTGACTTCTGTCGCCTCCTG
Band lengths:
230-1867
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)