HsaINT0026518 @ hg19
Intron Retention
Gene
ENSG00000151062 | CACNA2D4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:HGNC Symbol;Acc:20202]
Coordinates
chr12:1963117-1965275:-
Coord C1 exon
chr12:1965178-1965275
Coord A exon
chr12:1963211-1965177
Coord C2 exon
chr12:1963117-1963210
Length
1967 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CCCTGATGTTTTGCACCCAGGTG
3' ss Score
8.53
Exon sequences
Seq C1 exon
GATCTACTGCATCACAGATATTGACCCAGACCACCGGAAGCTCAGCCAGCTAGAGGCCATGATCCGCTTCCTCACCAGGAAGGACCCAGACCTGGAGT
Seq A exon
GTGAGTGCTGGCCGCCCACTGAGGCAAGCTTTTCCTCTGGGGCCCTGAAGTTCAGGACTTTGCCAGGAGAGGTGGGAAGGCAGGGGGAGGCTGCTGCACAGCCCTATCCCATTAGCACATGGATGGCTTAGATCAAACAGGGAGATTCCCAAAGAAAAAGGCATAGCCAGCCTTACCACAGGGCTGAGCTGGTATTTAAGCACCCTTGGAACTGTGGTAACATGTATGGATCCCCAGGTCAGGGACTGGGATCTTTTTCAGCCTCTATCCACCAAGCTCTGTTAAGGGTCAGGAGAAAGCACCATTCAGAGTCTGTCATCTTTTTCCCTACCACTGTCTAGAAGTGGACCTCTGGGCAAATGGCTGCCACTCTTCACCAGAAGTCCTCATCTCCACAAGGGGAGCATTTGGCCAGATGACTCGAAGCCTGTGGGCTCTGTTTTCTAAACCAGTTCCTCAGGCTAACCTTGCTCACCTCTTCCAGGTCTAGGAGCCCCAGGTGCTCCTTGTCTTGCAGCTGTGACACTTCAGTCTCTGCTCCATGGTCACATGGCCTTCTCACCTGCACTAATGCGAGTGGTGAGCTCATTAGGCCACATCCTCAGCTTGCTCCTCCTTCTTCCTCTTTGGAAGAAAGAGCAGGTCATCCTGTCACATAATTGTCACCCGCATAAGAAGACTGCCTCCCATGCCAACCCAACAGGGCACTTACTTACTTATTTATTCATTTCATCAACAAATCTGTACTGAGCTTGCACCCTGTGTCAGGCCCTGGGGTAGGTATTAGAGCTACAGAGATAACCCAGACAAGGCCCTTGCTATCATGGAGCTTACATTCTAGTGGAGAAGCCAGGTGATAAGCAAATAAGCCTACATATATAGATATAGGTTGTTATAAATTGTGATAAGCGCCATGAACAGGATGCTGTAGGGGAGAGAAATAGGCCTGCTTTAAAGGAGATCCTGTTAAGCCACTTGGGTGGCTCTATTGTGACACCTCCTCACCAAGGTGAGGAGGATCTCCTTTGGGGGGTGATAAAAATATTTTGGAACTAAATAGAGGTGGTGGTTGTACAACATTGTGAATGTACTAAATGCCGCTGACTGAATTGCATACTTTAAATTGGTCAGTTTCATTTTATGTGAATTTTACCTCAATAAAGATAAATAAATTTTTTAAATGAGAGAAGAAAAAGAAAGAGCCTCCATGCAAAGACTGGGAAAAAGAATATCCAGATCAAGGGAAACAGCATGTATAGGGGCTCTGAGGTAAGGAGGAGCTTGGCAAGGTCAAATTCACAGAACTGGCCAGGGGCAGTGGCTCATGCCTATAATGCCAGCACTTTAGGAGGCCAAGGTGGGCAGATCACTTGAGGTCAGGAGTTCTAGATCAGCCTGGCCAACATAGTGAAACCTTGTCTCTACAAAAATTACAAAAATTAGCCAGGTGTGGTGGTGTGCACCTGTGGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTAAACCTGGGAGGCGGAGGTTGAAGTGAGCCAAGATCATGCCACTGTACTCCAGCCTGGGCAACAGAATGAGACTCCATCTCAACAACAACAACAACAAAAAATTCACAGAACTGACCAAAGGCCAAGGTGTCTGGATGGTTAAGAAGCAGATGAGGAAGAGTTGAGATGGGGGAGACTGGGAAGATCCAACCTGAGGTCACTGAGGGTCTCCTAAGTTCATCAGATGTTACAATTGGAAAGAGCCTCAGATATCAAGCTGTTGTACTGACATATTTTTTGGAGTTGAGAAAGTGAAGACAGACAGAGGTGAGGCAGCTCCCTCAAGCTCACAGAGATAGTTTTACATGTCCCATAGACACGTTCAGGAAGCACATCTTCTCCCTGAACTTAGGATGGGAGAGTTGTGTTCATGAGCATGGAGGAAGCATGTGGCCTGGTTCCCTGATGTTTTGCACCCAG
Seq C2 exon
GTGACGAGGAGCTGGTCCGGGAGGTGCTGTTTGACGCGGTGGTGACAGCCCCCATGGAAGCCTACTGGACAGCGCTGGCCCTCAACATGTCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000151062-CACNA2D4:NM_172364:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCACAGATATTGACCCAGACC
R:
GGACATGTTGAGGGCCAGC
Band lengths:
182-2149
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)