HsaINT0026558 @ hg19
Intron Retention
Gene
ENSG00000165995 | CACNB2
Description
calcium channel, voltage-dependent, beta 2 subunit [Source:HGNC Symbol;Acc:1402]
Coordinates
chr10:18827109-18830688:+
Coord C1 exon
chr10:18827109-18827294
Coord A exon
chr10:18827295-18828158
Coord C2 exon
chr10:18828159-18830688
Length
864 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TGTGCTCCTTTCGCTGCCAGGGT
3' ss Score
8.97
Exon sequences
Seq C1 exon
GAGCTGTTCGATGTGATCTTGGATGAGAACCAGCTTGAGGATGCCTGTGAGCACCTTGCCGACTATCTGGAGGCCTACTGGAAGGCCACCCATCCTCCCAGCAGTAGCCTCCCCAACCCTCTCCTTAGCCGTACATTAGCCACTTCAAGTCTGCCTCTTAGCCCCACCCTAGCCTCTAATTCACAG
Seq A exon
GTAAGGGGAGTTTTTATATATATCTATATATACAATCTTCATAGAAAAAAGGTTGCCTATGGTGACACCTCTAGGATCCAAGCCCAGTAGCCTGCTTGGGGCTTGTTCTAGTATATTAACTCAAAGCAAGTCCAGCATGAGCTGTGTATGTACCTGTAAGAAAAGCACCATCAACAGAATATATTGGGAACATACACAGACTACCGAAACTTTCTAAACAGTAGCATAGACTGTGGAAGTGGATCACCTAGATTCAAATCCTGGCTGCACCTCTTACCACTTGTGGGGTGGATAACCTGGGGCAAATTTCTTAACTGTTCTTACCTCAGGAATAATAATGGCAACCTGTCCAAGAGGCTGCTGGAATTAATAATCTCAAGAGATGATCTTATAGGGCTGTTGTATTAATGAGTTATTATATACAAAGGGTCTACAGAACAGTGCCTGTCCCATACTGTATCACTGTATCAGGTAAGCATTTGCTATTTTTAATATTCTCACATACAGTCAAGCAGAGGTAGTTAAGTTTACACCGCTGTATAGAAAAATCTCAGGGACCTGCATCTGTATTTGAGCCACAGGAGAATAAATAAAAGAACATTTTCCCTGCTGCTGCTTTTTTTTTTTTAAAGGAAAAAGTTACCATGGGCACTGTTCTAGGCACTTACAAAAGTCCAATTTAATATAGTATAGTATAAAGCCTTATAAATGCCACTGGATGTTACCAAAGGGATGAAGCTAGGTTAGACTTCATTTCAGCTTTTCGGATGCTTAAAAAGGACTCTGCTTGAATGCACTTGCTCTGGGACATGTTCTTTACACACTGACCTTGGTTAACGCCTGGTGTGCTCCTTTCGCTGCCAG
Seq C2 exon
GGTTCTCAAGGTGATCAGAGGACTGATCGCTCCGCTCCTATCCGTTCTGCTTCCCAAGCTGAAGAAGAACCTAGTGTGGAACCAGTCAAGAAATCCCAGCACCGCTCTTCCTCCTCAGCCCCACACCACAACCATCGCAGTGGGACAAGTCGCGGCCTCTCCAGGCAAGAGACATTTGACTCGGAAACCCAGGAGAGTCGAGACTCTGCCTACGTAGAGCCAAAGGAAGATTATTCCCATGACCACGTGGACCACTATGCCTCACACCGTGACCACAACCACAGAGACGAGACCCACGGGAGCAGTGACCACAGACACAGGGAGTCCCGGCACCGTTCCCGGGACGTGGATCGAGAGCAGGACCACAACGAGTGCAACAAGCAGCGCAGCCGTCATAAATCCAAGGATCGCTACTGTGAAAAGGATGGAGAAGTGATATCAAAAAAACGGAATGAGGCTGGGGAGTGGAACAGGGATGTTTACATCCGCCAATGAGTTTTGCCCGTTTGTGTTTTTTTTTTTTTTTTTTTGAAGTCTTGTATAACTAACAGCATCCCCAAAACAAAGTCTTTGGGGTCTACACTGCAATCATATGTGATCTGTCTTGTAATATTTTGTATTATTGCTGTTGCTTGAATAGCAATAGCATGGATAGAGTATTGAGATACTTTTTCTTTTGTAAGTGCTACATAAATTGGCCTGGTATGGCTGCAGTCCTCCGGTTGCATACTGGACTCTTCAAAAACTGTTTTGGGTAGCTGCCACTTGAACAAAATCTGTTGCCACCCAGGTGATGTTAGTGTTTTAAGAAATGTAGTTGATGTATCCAACAAGCCAGAATCAGCACAGATAAAAAGTGGAATTTCTTGTTTCTCCAGATTTTTAATACGTTAATACGCAGGCATCTGATTTGCATATTCATTCATGGACCACTGTTTCTTGCTTGTACCTCTGGCTGACTAAATTTGGGGACAGATTCAGTCTTGCCTTACACAAAGGGGATCATAAAGTTAGAATCTATTTTCTATGTACTAGTACTGTGTACTGTATAGACAGTTTGTAAATGTTATTTCTGCAAACAAACACCTTCTTATTATATATATAATATATATATATATCAGTTTGATCACACTATTTTAGAGTCTTAATGCCAAGTCAGCAGATTTGCTTTATGAATTACAGGGACTAGAAATGCCCACATTCAGGAAATTTGTAATAACATTGTCTAGACACCTATCCTCATTCTAGTAGAAAGTGTGTACATACTGTAAATATGTGTGATTGCTTGACTTGAAAAGGTTTGAATTCTGAATGTTATACCATCCTTGTAAGTAAGTTTGTAATTTCCACCATAAATTATGGTAAATATAAAACTCCAGAGGTTGTTCTACTCCATACAGTTCACACTGATTGTGACACATTCTTAGTAGCTAGTGTCTGTTCTAGTCACTGCACTGGAGTCTACGAGCCGGAACTCGCTATATGCACGTGTGTGTGTCCGTATGTAAGAAAGTGTGCACCGAGTGACTGAATGGTTGAGATGAATTGGAATGCTGAAGACTAACGAAGAAACTAGAGACTGATATCGAGCATTCTGCCCACCTCGCTCTGTATTTAATTAATTGTGCTATATGTTGCTTTAACAACCCATTGAGCAGTCAGGGAATGTGAGTAAGCTTGCTGCCAAAGGTAACTAGGAAAGCATTCATCTGCTGCCTCCTTGTTTTTGCTCCTAGAGAGTGAAAATACAGGCAATTTTACTGTGAGTGTTTCACTGGAAATGTACAATCTTTGTGTGTTAGAGTATTTGTTTTAGTAAGAAATGTTTACACAGCTTGTGGAATTATTTCGTGGGAAAATAAATTTTTATAACTTCTCCCACTTCAATTTCTAACCTTGCCTATTGTTCCTGTTGTTTGTTTACCTCCCAGTTACCTACCATTCCTCCCCACCACCGACTCCAGCAGGTTCACTGTCTGTCAGAACCCAGAAGTGCTTCTTATAACCAAAGTTTCTGTTCTTCAGAAGAAATCAGGGCAAAATGGGGTGACTTGAAGTGAATAAAATGTTAAGAATATTATCCTACATAAGACATGTACACAGAAGGGGAACCTTGAAGACATTATCTCCATGCCTCAATTACACTGCTGTAAGAAGCTTACAATGTCATCATGTTTAAGGCTAAGACCTTTTCCGTGTCTCAAGTGTATATTTTGTCCAGTTATAACTGGATGGTAAGACAGTATTAAGAGTGCAAGTACCTGGCACTTGAAGTTTGTCCCAGGAAAATGCCTGTGTATAATTACCTAACTTCAGATCTGCACATTAACTTATTTAACAAAATAAATCAGCCGGGCGCAGTGGCTCATGCCTGTAATCCCAGCAATTTGGGAGGCTGAGGAGGGTGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACGTGGCGAAACCCCGTCTCTACTAAAAAGATAAAAAATTAGCCAGGTGTGGTGGTGCACACCTGTAATCCCAGCTACTTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165995-CACNB2:NM_000724:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.477 A=NA C2=0.994
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PD(13.8=40.3),PF068127=ImpA-rel_N=WD(100=45.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCCCAACCCTCTCCTTAG
R:
GTCACGGTGTGAGGCATAGTG
Band lengths:
352-1216
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)