HsaINT0026576 @ hg38
Intron Retention
Gene
ENSG00000167535 | CACNB3
Description
calcium voltage-gated channel auxiliary subunit beta 3 [Source:HGNC Symbol;Acc:HGNC:1403]
Coordinates
chr12:48826367-48826854:+
Coord C1 exon
chr12:48826367-48826518
Coord A exon
chr12:48826519-48826758
Coord C2 exon
chr12:48826759-48826854
Length
240 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
GCTCTGCCCTCCCCGCTCAGGTA
3' ss Score
9.45
Exon sequences
Seq C1 exon
CGGAAGTGCAGAGTGAGATCGAGCGCATATTTGAGCTGGCCAAATCCCTGCAGCTAGTAGTGTTGGACGCTGACACCATCAACCACCCAGCACAGCTGGCCAAGACCTCGCTGGCCCCCATCATCGTCTTTGTCAAAGTGTCCTCACCAAAG
Seq A exon
GTAAGTCAGCTGGGCTCATGGAGGAGGCCCACAGGGCTATCCTACTAGAATGTGGCATGATTCTACTTGGTCCCTGCCTGGGGCACCTGAGTTCCCTTTTCCTGCTGCCCTTAACACAACTCTGAGTCATCCTCACCTGCTACTGATGCCACAAGTGGAAGAAATGCCTAGCTCTGCCCGGGCTCAGCTCTGCCCAGAGTCCTGAGAGACTCCAGGCCTAGCTCTGCCCTCCCCGCTCAG
Seq C2 exon
GTACTCCAGCGTCTCATTCGCTCCCGGGGGAAGTCACAGATGAAGCACCTGACCGTACAGATGATGGCATATGATAAGCTGGTTCAGTGCCCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167535:ENST00000301050:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(27.6=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAAGTGCAGAGTGAGATCG
R:
GTGGGCACTGAACCAGCTTAT
Band lengths:
246-486
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