HsaINT0026596 @ hg19
Intron Retention
Gene
ENSG00000182389 | CACNB4
Description
calcium channel, voltage-dependent, beta 4 subunit [Source:HGNC Symbol;Acc:1404]
Coordinates
chr2:152727356-152729007:-
Coord C1 exon
chr2:152728931-152729007
Coord A exon
chr2:152727376-152728930
Coord C2 exon
chr2:152727356-152727375
Length
1555 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTCTCGTTATTGTCTTTTAGCAA
3' ss Score
7.97
Exon sequences
Seq C1 exon
GAAATCAAGTGGAAATTCTTCTTCAAGTCTTGGAGAAATGGTATCTGGGACATTCCGAGCAACTCCCACATCAACAG
Seq A exon
GTGAGGGTTGTAGTTAAACTCTTTTTCATACACTGTATTCCTTTTAAAAATATTTGAACACACATGCAAGTAGTTTTGCTAATTTGGAAACAATTTGAAGGCTTAATTTAAAGATTCTCTAATTAATATTTCATTTCTCATTTGTTTTCTATGGTAATTTGATTTCATTTAAAATGGTATTAAAAATTCATGTCATTAGAATATAATTTTGAAAAATCTTATTTACCCCTCAGTGTTAATAACTGTCCATTGTGTAAATTGATATTCAAAAAATTCATTATTTTACCTAAGGAACGGACAGAGTTTAAGATGGTGAAGGCCAATAAAAAAAGGAAAAAAATGATGCAGACTCTCAAGAAAATGCTGTTTTCAGTCTCCATGTGGAATTTCAGGATGTATTAGTACAGCCCGAGCTGGAAGGGTTGAAGCAGAGAGTAAGGCAGGGCCCAAAGGAGGGAGGGCCTCGTTTACATTTGGACAGCAGACAGCCAAGCCCTGGAATTAATGGTAATGAAGAGATATTGGTGGCCTAATAGGGAATTGTGGTACATTTGGAAACGATGGAGTTATTCATGTAGGAATTTTTCTTCTACCACATTCCCTGATTCCTATCGGCTAATTTCATTCTGGCCTAGAACTGCTGTTGCATTAGGGCATCCAGTGTCCTAGTTACCAATTCCAATTGTATTACCAATTTGGAATGGCAAGTCCAAGGCCCTATTCTGGCCTACCAAAACTGGAGGCAACTGGATTGGTTCTGGAGTGGTTCTAAGTGTCTGGGTCCTTGTTCATGTGAAGCCCTCTTATCTACAGGACACTGAACCAAACCAGGTTTCTGAGTTGTACCCAACTAGACTGGAGCTGCTTGGATGTCCACAGAATCGCTTTAAATCAGTTATTGAGTATATTTTGCTTCGTTCCCATTTGTTGGACATTCAGGACATTGAACACTTTAGCTATTACAAACAGGAAAGAACAGGAATAACTCATTATAAATTTATCTGAGGAATAACTGGTTATAAATGTATTTGAAATTTAGAAGCAAGATAGTAGGAAAAATGTGCCAATATTCTAGAAAATGGGCAAAAATGCCCAAGGGACTGCAGAATTATGAGTTAACAAATATAAAAATAACTATTGATTGAGGTGATAGTCATTTTTGCCCAAGTGGTTATTCTGTTTCCTTTTATGAAATTGCATTTGTCTACCTTGTTCCCAGCAACACTGTGCTGTGTCCAGCACGGGAACAACCCATGGTGATTGGCTGGCCCGGAACTTCCAGTGTTGCTCTCAACTCCTGTACCCAATTCCCACCCAGTGAGAAATCAGGATATAAGGTCATTTGTACCAGGGAGGAAGCTGTCTGTTTTTCATACATCTTCAAAATTGACGTGTCCAGAATGAAATCATAAGGCAGGTTCTCCAAAGTGGGCGATAGGAAGGTGGTGAAGATAATTACAGGGACAAATGGGTACATTCTTCCATCTTTTAAACTCATGTACTGTCATTTGCAGAGTTTACATATTTTGATATGGCTCTCGTTATTGTCTTTTAG
Seq C2 exon
CAAAACAGAAGCAAAAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000182389-CACNB4:NM_000726:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.852 A=NA C2=1.000
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:
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)