HsaINT0026578 @ hg19
Intron Retention
Gene
ENSG00000167535 | CACNB3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:HGNC Symbol;Acc:1403]
Coordinates
chr12:49220757-49222724:+
Coord C1 exon
chr12:49220757-49220906
Coord A exon
chr12:49220907-49221367
Coord C2 exon
chr12:49221368-49222724
Length
461 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
AGCTGTTGTATGGCCCCCAGAAC
3' ss Score
5.53
Exon sequences
Seq C1 exon
GAGTCATTTGATGTGATTCTGGATGAGAACCAGCTGGAGGATGCCTGTGAGCACCTGGCTGAGTACCTGGAGGTTTACTGGCGGGCCACGCACCACCCAGCCCCTGGCCCCGGACTTCTGGGTCCTCCCAGTGCCATCCCCGGACTTCAG
Seq A exon
GTAACCATTTCCAGTGGGCAGAGATGCTCAAGCTAAGCCAGCCAAGGCACTGCCCCTCCCTGCCCAGAGGACTGTCCTTGGCCTCCAGTTCAGCATGCCAAAGGATTGTAGAACTCTCAGCTCTGCTGTACAGAGCTAGCACAGACGGGCAAAGGAACTTCCTGAGGAGAGAGGGAATCAATCAATGAGATGGATACGTCAGAGATTAGTTTCCTAGGGGTCAAGAGAAACACAATCTCCAAACCTTCTCCCAGGCTGCCTTGAAGGCAGAGCCTGAATTTTGCGGGAGTCGAAGCTCCAGTTTTCTCTCTCGGAAGAGGAAAAATGCTCCAGCATGCTTTTTCCTTGCACTATTTCCTTTACCGGGGAATTGAGAGTTGAGGGGGGAAGAATCTCGCACCTCACCAGAAGACAAGGTGAGGTCTGTACTGCCTCACTGAGAGCTGTTGTATGGCCCCCAG
Seq C2 exon
AACCAGCAGCTGCTGGGGGAGCGTGGCGAGGAGCACTCCCCCCTTGAGCGGGACAGCTTGATGCCCTCTGATGAGGCCAGCGAGAGCTCCCGCCAAGCCTGGACAGGATCTTCACAGCGTAGCTCCCGCCACCTGGAGGAGGACTATGCAGATGCCTACCAGGACCTGTACCAGCCTCACCGCCAACACACCTCGGGGCTGCCTAGTGCTAACGGGCATGACCCCCAAGACCGGCTTCTAGCCCAGGACTCAGAGCACAACCACAGTGACCGGAACTGGCAGCGCAACCGGCCTTGGCCCAAGGATAGCTACTGACAGCCTCCTGCTGCCCTACCCTGGCAGGCACAGGCGCAGCTGGCTGGGGGGCCCACTCCAGGCAGGGTGGCGTTAGACTGGCATCAGGCTGGCACTAGGCTCAGCCCCCAAAACCCCCTGCCCAGCCCCAGCTTCAGGGCTGCCTGTGGTCCCAAGGTTCTGGGAGAAACAGGGGACCCCCTCACCTCCTGGGCAGTGACCCCTACTAGGCTCCCATTCCAGGTACTAGCTGTGTGTTCTGCACCCCTGGCACCTTCCTCTCCTCCCACACAGGAAGCTGCCCCACTGGGCAGTGCCCTCAGGCCAGGATCCCCTTAGCAGGGTCCTTCCCACCAGACTCAGGGAAGGGATGCCCCATTAAAGTGACAAAAGGGTGGGGTGTGGGCACCATGGCATGAGGAAGAAACAAGGTCCCTGAGCAGGCACAAGTCCTGACAGTCAAGGGACTGCTTTGGCATCCAGGGCCTCCAGTCACCTCACTGCCATACATTAGAAATGAGACAATCAAAGCCCCCCCAGGGTGGCACACCCATCTGTTTGCTGGGGTGTGGCAGCCACATCCAAGACTGGAGCAGCAGGCTGGCCACGCTCGGGCCAGAGAGAGCTCACAGCTGAAGCTCTTGGAGGGAAGGGCTCTCCTCACCCTGCCAGGAAGCTTCTTAACATGTGACAGGACCAGGGACCAGGAGCATGGTGAAGCCAAGTGGCAGATGGGAGCCAACCTGGATGGGGGTTTGGGGAAGGAGGGCATGTGTAGCAGAGAACTTAGGGGGGCCTCCTTGCCTTTCTCATTCTTTTGCCCTGCATCCTGTCATTTCTGTTCTTGTCCCTCATACATCTTTGGAGAACCGGGCTCCAGACTTTGTTCCCTGACTCATAGCTGCCGCTTGTTAGGTTAGGGTTAGATGGGGAGAGACAGGGCACAGAGGACCTGTCTCCCCGGCTACTCTTGCCTTATGGCTCTAGTGTGTGACCTACAGAGCATGCTCCACAAGCCCCTGCCTCACCTCACTGTCATCACTAATAAACATCATGCACAGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167535-CACNB3:NM_000725:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.360 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PD(13.8=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCTGGCTGAGTACCTGGAG
R:
TCTGAGTCCTGGGCTAGAAGC
Band lengths:
353-814
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)