HsaINT0026588 @ hg19
Intron Retention
Gene
ENSG00000182389 | CACNB4
Description
calcium channel, voltage-dependent, beta 4 subunit [Source:HGNC Symbol;Acc:1404]
Coordinates
chr2:152711738-152717334:-
Coord C1 exon
chr2:152717225-152717334
Coord A exon
chr2:152711890-152717224
Coord C2 exon
chr2:152711738-152711889
Length
5335 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
TTTATTATTTTTCCTTTAAGCGG
3' ss Score
7.45
Exon sequences
Seq C1 exon
GATTTCAATAACGAGAGTGACAGCTGACATTTCTCTTGCTAAGAGGTCTGTCCTAAATAATCCCAGCAAGAGAGCAATAATTGAACGTTCGAACACCCGGTCCAGCTTAG
Seq A exon
GTAAGATGTTCAAATGTGGTACTTCTTCAAGCTGTGCTTACAGACCGGGCTGACACATGGTGCATTTGTGAATGTCTTTTTCAATTTGTTCCCCATTCTGAACGGGGGAGCACTGAGTACCTAAAAAGAATGCTAGCTATGGACAAGAAGGCAGCAGAGTCTTGCAGTAGCGAGAGCTTGCTGTCTCTCAGCTTTAGTCAATTAGCTAATTAGTAGTCTGGTGGAAAGAATCCTCAATGGGCTCTCCTAGTCTTTTCCTGCCTAACTACATGAAACCAGTCATCTCCACTTTGCTCAGCTTCTCAACAAGGCTAATGATATCTGTCATACCTGAGTCACAGCTGACATAAAAGGAAACGAGGTGTTCAGCCTTCTGAGATCTTTAGAAGAAAAGCTAGATAACGGTGTTCTTGGTGTTGTGAATGGCAATGACCATTAGTAACATGCAGGGACTTTAAACATGTCTTTCCTGGGGTACCAGTTGGAAAGCATCCTAAAATTCCCCATGATGGAGAAGAATAAAGGCTGTAAGTGAGTAGCTCCGTCAAGCCATAGGTGAGCAGGGCTGTGGAGGATGGATCATAACCCACAGAAGCGAGTCCATAGTGCTGGTGAATTACATCGTTCATCTGGAAAGCCTGTTCATGGTCTCCACGATTGCCAAGGGTGGTGTAGTCCACTCATGACTTCCTAGGATTCTCTTTACATTCATATTCTGAGGGCAACTTGTTTTAACTAGGAAGGATAAATAGGGCTCTTCCATGCCTTACATTTTTTAAACTGTTGAAATTAGCTCTATAGATAATAGAAAAATAAAATTAAGATTTCCAAGACAGAGTGCATGCCCTAACATCACATTAAGAACCCACTGACCTTGAGCCAAAGATCGTGCAATTTGTAAAGAAGGTACAAAATATTATCTGTGTGTTCCTGACATGGGATTGGCATGTGATAATTGCTAATAAATGTGGGATGGTTGCTTTGTGAAGGATTACTAAACATACCAAATAGAGTAGTGGTCAGTGCTTGTGAGGGGAAGATCCCAGCGATTAGTGGTCCCTTCTTTTGTCTTGTATTTAGAGCCTTCCACATGCAGAGGGAAACATGCTCAAAGGCACAGTATTTTGACCTTGAAGAGGTACAATGGCAGTGTTGATGGTGAATCCTATTAGGTAATGACTAAAGTTAAATATCATGGGTGACAGGGACATTAAGTTAGGTTGAAGTTTCTCAAACAAACATCAATTCTCTGCTCTCCTGTTTTCTACCCATTTTGTAACTCCTTATAGTGTCTTTGGCTTTTAAGTACTCCTTCTAATGTATGGTGAGAGGCTAAAAGATAATTAAAAGCTTAAGCCAGGTTGTCTGACTCCTTTAACCATTGACACCTGCCAAGGGCTTCATGTGTATTCACTGAAGTCATTCCTTACAATCCATTCACCTGCTGTCAGAGTCAGTGGGGTGGATGGGGGGCATGTTAGTGTAAACAAGAAGAAACAAAGTATATCTCACCTCATGGTTTTTACCTTTACTCTGTAAAGTCATAAACCCACAACCATTGGAATTAATTTCATGGCAATCTATTAATTTTATAATAACCACAATGTGATCCATTTGTGTGCTTGTTAATGCACATTTGTAGATTCCTTCATCAAATGTTTATTGAACACTTGTTATGTGCCATGCATTGTGCTAGACTTAGGAAATAAAGACATAACCCACACACAGTATCTTACCCATGGGCAAAGAGACAGAAGAGACAGATGGTTAGAATACCTGTGACAGTGGAATTATGAACAAGGAACTAGGGGTATAAAGAAGAGTAGGGGTTAAGAGATGTGTGAGAAGACTTCTCAGAAGTTATATTTGAGCTGGTTCTTCAAGGCAGGCAGGAATGTACAAAGACATTGACATGTAAACAAAAATATGTTGTTGAGAAACAAGTAGATTTGTGTATAGCATGCTTAGAACAGGGAAGTTGGTGGTGTGATTTGAGAGGAACAGAAGAGATTGAAAAAGATTGAGGCCAATGTGTTGGGGTTCTAATGCACCTTGCTAAAGAGAACTCCAAAATAGATCCCATGCAATGTTAATTTTACAACATAGTAACAGTTGTTACATTCAGAATGTTTTCCATTGTCAAATAAATTTGGAAATGATGAATTAAACTGACAGGTTTCTTCTCTGCAAGACTTAGAGCCTTGAAGATATGAAGGATAATGCATGTTTGAAATTCTAAAGAGAAGCTATTATAGTATTCAATATAACCCTTACACAAAACCCCCTTCTTCCCATAGGATATCTTATGAGATTATTGTTCCAGAGTACTCACTTTGGGAAATGTTGCTTTGGACCCTGGGGAGCCATTGAAGTGTTTTAAGCATGGGAGAAATATGAACAGGTTTGAGTATAAGGGATATAATTTGTGACAGGGATCCTGGAGAGAGGTGGGCCCAAATCATCATGGTCAGTTTATAGAAGTGTTCATCGAGGTCCTCCAGCATCATAGTCCATGACTCCCCAGGGCTCCATTTGACTGGAATAGGATTATGAGGAAAACTTATTTGGAACCCCTCTGAGAATCAGTCCAGGTAGCCAAGATTTTTTGATTTGGTTGAGATCTTTTTCTTTAAAAAACAAAAAAAGAGCTATATAGATAAATATGCCTCACAGATAAAATATATTTATTACATTCTGTATACATATTATCCAAACATTGGGCTCACCCCAGTATTTAATGTGGCCTTCTCCAGCATCCCTGCTGGCTTGTTCTGCCCAAGCACCTCTCTTCCTCTGCCCAAGTGCCTGTTGCCTAAGAGTTTTGTGTTGGTTAAGCAGTAGGTATGGCTGCCCTTGCTCCTGGCAGAAACCACACTTAACCTCATTGCTGGTGCAGAGTAAATAAGGCCCAGGTATTTCTGAGTCATTTACACAGAAACTCAGAGTGCCTTGAGGGTTATTTGTACCAGGGCAGTCCAGTTCACATCAATGTCTTTCTGCTGCTTCTGAAAATATTGTATTCATATTTGAAGCTTAAGAAAACATAGGCTTGCTCACATGTAGTCCTGGCCAGGAGCTCCCATAAGCCAGTGACAGTTTAATGAAAACAGCAAATGGGAAACATACCCTGACATCCTGAGGCTGAAATTTACTACAGTAAAAATTGACTTTATTTTCCAAACTTCCTTCTGAAGAAAATTTATTTTAAAACTGTTTCTGCCATGTGAGAGAAAAGGGGACAAATATGCTACATTACTAACAAATGTAGAATATGATTTCAGAAGAATTTGACAAATAAGCCCACTTGTTTTCATTAATATTCTGAAAGCTAGTCACCTTTCCAAGCAATGTGAAGTCTTTCAGGCCATTGGTATTGGATAACATGAAAAGTGATATGTTGACTCTTCAAATTAATCCTTTTTAATACAGATCATGCCTTAAACTTCAGTGATTCTATGGGAAATAAGAATTTTATGCAATCATGCAAAACATAAGAAAATAGATTTTCATGATAGTCTTGAGTATTCATGACCCTGCACACCTTGTCAATCCTTTTGGTTAAGGAAGGGAGAATTTTTTGGTGGGCTATGTGAACTTGAATTTATACTAAATAAGCAAAGCAAATCACAAACACTTTTCAATGAGGATATTTAGAGCAACATTACCTTTTTCCCTAGGCCATCTTTAGGGTCGTTTAAGGCCGGGTACAATGGCTCACACCTGTGATGCCAACACTTCAGGAGGCCAAGGCAGGAGGATTGCTTGGACTTTGGAGTTCAAGACCAACCTGGGAAACTTAGTGAGACCCAGTCTCTACAAAAAATAAAAAATTTAGCCAGGCACAGTGATGTGCACCTGTAGTCCCAGCTACTCGGCAAGCTGAGGTGGGAGGATCACTTGAGCCCAGAAGGTTGAGGCTGCAGTGAGCTGTGATTGTACCACTGCACTCCAGCATGGGACACAGAGTGAGACCCTGTCTCTAAAAATTAATAATAATAATTTAAGTTAGATAGTTTTGTGTACTGTATGTACTTTGGACCAGATTACAGCATTGTTTGGTCACACCTATAGCCAAAAAATAAAAATAAAAAACAAAATCAGCTGGGCACAGTGGCTCATGCCTGTAGTCCCACCACTTTGGGAGACCAAGGTGGGTGCATCACTTGAGGTCAAGAGTTCAAGAGTTCAAGACCAGCCTGGCCAACATGGCTAAATCTCGCTTCTACTAATAATACAAAAGTTAGCCAGGCATGGTGGCGTGTGCCTATAATCCCATTTATGTGGGAGGCTGAGGTACAAGAATCACTTGAACCCGGGAGGTAGAGGTTACAGTGAGCCAAGATCATGCCACTGCACTCCAGCCTAGGCAACAGAGTGAAACTGTGTCTCAAAAACGAAAACAAATCAATTTCTCTGAAAATCAAATAGTATAATTCAGACTTTGGGCATGATCCAATAAGTCAGGTAATTTATAAAATATATATATATATAAAACTTTTTTATATTTCAGAAAGCCATGTCCTATGTTGATTATCTGTTTTCCTTAAAAAAAAAAAAAACTGGATTGCTTCAGACATTTGAAAAGAGTAGATTTTTCATTTGACTAGACTCATGCACAGATTTGGGTCACTTGGCTATTACAGCCAGCCAGATAGATTTGCATCTAGATGCATTGCAGCGTTTTAATATAATTGGCCTTACTTTTTTTTTTTTAATACTGAAGCTAATTATGCCTTAGAACAAGTACATTGGCTTTCGTACTTAAATCTAACTAGACTTAGTAATATGATTAGTTTTAAGGGTAGACTCAGAACAATTAACCAGTGGTACAAAAATATGCATATCAGTCAAAACAGATGAGTTGTGGGGTTTTTTTAAAAGAAGCATGTCCACAAAGTATTAGTTTATACTTCGTTGATAGAAATATTTCAGTGTAATTTGCTTTCCATGTGATGTTGCTTTGCACATATATTTCAGTTGTTTTCTAAATGTGCTTTTAGCTTCTATGGCTAACATTAAAGTTCTTTAGAACAAAACAACAATCAAAAACAACATAAAATAATCATCGTAGTTATATAAACAGCTAAATATTATATTGACTAGAAGAAGCAAATTAAGAGAGCCATCTCAGACGTTTCTACCAACTGGTTGTATGCAAAACTCAACCCATCTCTGTCTATATTTAGAAAATGTCTTAAATTAGACAGGACTATGAAAATTTAAAATGTTTTATTTTGTAATGTAGACCAACATATCTGAAAATATACTATATCTTTCTAATGTAAGAACTAATTCATAACAATAACCGGGATCTATTTATTATTTTTCCTTTAAG
Seq C2 exon
CGGAAGTACAAAGTGAAATTGAAAGAATCTTTGAGTTGGCAAGATCTTTGCAACTGGTTGTTCTTGATGCAGACACCATCAATCACCCAGCACAACTTATAAAGACTTCCTTAGCACCAATTATTGTTCATGTAAAAGTCTCATCTCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000182389-CACNB4:NM_000726:10
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.164 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(18.2=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(24.6=100)
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
- 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)