HsaINT0026589 @ hg38
Intron Retention
Gene
ENSG00000182389 | CACNB4
Description
calcium voltage-gated channel auxiliary subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:1404]
Coordinates
chr2:151853448-151855375:-
Coord C1 exon
chr2:151855224-151855375
Coord A exon
chr2:151853544-151855223
Coord C2 exon
chr2:151853448-151853543
Length
1680 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TTCATGTCTTCTTCTATCAGGTT
3' ss Score
10.04
Exon sequences
Seq C1 exon
CGGAAGTACAAAGTGAAATTGAAAGAATCTTTGAGTTGGCAAGATCTTTGCAACTGGTTGTTCTTGATGCAGACACCATCAATCACCCAGCACAACTTATAAAGACTTCCTTAGCACCAATTATTGTTCATGTAAAAGTCTCATCTCCAAAG
Seq A exon
GTAATTAGCTCCTTTCTGCCTTAAGGTTTAGAAGTGCATCTTTTAAAAATGTGTTTTGCTCTGTGGTTTTTTGTTAGTGGACAAAGGAGAACGTCTTGCTGATTATTAATAAGCACATTTAAAATCTTTCCACAGTGTACAGATTCTATGAATTTTCAGATAGTGAAGAATATAATAGTTCATTTCTTCTAAAAGCTACTATTGTAGATCCCAAACAAGACAGTTATGCAAGTGTATAATAGAAACAAAACATTAAGACAGATGTGGAAAAGTAGACTCTGGCTTATCATAGACTATGAATTCTATATTGGTAAATTTCTTGGATCCTGTTGATTCCTGTGTCATCCATACTCTGTACCTAGTTGAGAGAGTACATCTATATTGATCAAAAAAGGCATCTATGTTGATCATATATAAAATAGAATATCACTGTTTAAACATCTCCTATGGAAGCATTATAGACCCTGACATTTGTGCTTAGGTTGAGTTCTTGAAAGAATGTGGTTATTCCACGATAAGCACAATGGGAAATTTGCTTTGTATCTTTATGCCATTGTGGGAGGTAAAAATAAAAGTGAAATAGCCCCAAATTGGTTTCTTTTGATTTGGGTGTTCTTTCATTTTTAAAAAAGGATGTTGTTCTTAAAAAGTTAACGTGAAATGGTTACCCTTGGGAAGTACTATCTTAATAATCAGTTTCTTCTCTGTGCCTCCTAGTGTATTTTGGTGCCTAAATACAAATTCAACTGCCAACCAGCATGGCAGTCTTCTCTCATGGGTGGAGAATGTCTAAAGAAGCTGTACTCTCCTCCAGATGTTCTGAGATCCTAGCCTTCCATCTATCTCTGCAGACACTGCTTTGGTGCAGTGGACTTGGGAATCCTGAACAAACTAGGGCCTTTTGAGAATCAGTAGAATGGATTGAAAGAGCTGCTGGGGGTTCAAGCACTTCACTGCAGTGCAGGAGAGTTCAGCCCTTCCCACTGCCCATGACACTGTGGTGTCCTTAAGTGCAAGAACAGGAGTTCCCAGACACCTATGTCCTGGGGTATTATAGAGCTCATAGATTAGCATTGTTTGCAGGGGAAGGGCCACGGGACATGGCAGTATATGACCAAATGCAGTTACAGCAGTGGCCAAAAGACATAGATATATCACTGGTTTACATGTAGCAATATACTAATACAAATGTTTTGCCTGGGTCTCCAATCACAGAATAGTCTGATTAATTTAAAATTAAACTGAAATGTCCCATTAATAATCGGTGACAAAAATAACCAGAAAATGACTCTGACATTTATCTGACATGGAGATAGTGAGCTAAAACATTATTCAGGTGAATAATATTAAAGTATTACTTAACATAAATGACCTGGTACAGTCCACTCCCTCCATTTTTACAGGTCTCTCTTTGAAATCTCTGGGAAAAATCTAGGATGGGAACTCAGGCTCCTCCTGAGACTTCACACAGAGTTAGAATAGGATGAACATATCAAATCCATGGAACTGAGAGCCAATGTAAGCAGATGACATCATTACAGGTTTAAATATATGATTTCTCACACTGCATTTCCTCTCTGATAATACTCAGGGCCAAGCAGACCATTAAAAAGATCCTGGCTTATTTGATTTTCTTTCAACTCATCTACAATACCTCAGGTTCATGTCTTCTTCTATCAG
Seq C2 exon
GTTTTACAGCGGTTGATTAAATCTAGAGGAAAGTCACAAAGTAAACACTTGAATGTTCAACTGGTGGCAGCTGATAAACTTGCACAATGCCCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000182389:ENST00000539935:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.131
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(24.6=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(15.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
ENSP00000201943, ENSP00000353425, ENSP00000390161, ENSP00000410978, ENSP00000443893, ENSP00000489677, ENSP00000489679, ENSP00000489697, ENSP00000489732, ENSP00000489779, ENSP00000489787, ENSP00000489818, ENSP00000489876, ENSP00000489883, ENSP00000489915, ENSP00000489953, ENSP00000489967, ENSP00000490247, ENSP00000490250, ENSP00000490298, ENSP00000490304, ENSP00000490443, ENSP00000490572, ENSP00000490607, ENSP00000490651, ENSP00000490660, ENSP00000490891
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAAGTACAAAGTGAAATTGAAAGA
R:
TGTGCAAGTTTATCAGCTGCCA
Band lengths:
238-1918
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