HsaINT0027462 @ hg19
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3, (p94) [Source:HGNC Symbol;Acc:1480]
Coordinates
chr15:42694992-42695975:+
Coord C1 exon
chr15:42694992-42695200
Coord A exon
chr15:42695201-42695938
Coord C2 exon
chr15:42695939-42695975
Length
738 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
CATGTCTGTATTCCTCACAGGGA
3' ss Score
10.01
Exon sequences
Seq C1 exon
ATGCACGGGAACAAGCAGCACCTGCAGAAGGACTTCTTCCTGTACAACGCCTCCAAGGCCAGGAGCAAAACCTACATCAACATGCGGGAGGTGTCCCAGCGCTTCCGCCTGCCTCCCAGCGAGTACGTCATCGTGCCCTCCACCTACGAGCCCCACCAGGAGGGGGAATTCATCCTCCGGGTCTTCTCTGAAAAGAGGAACCTCTCTGA
Seq A exon
GTGAGTGCTGGCCCAGCTTTCCCACGTGTTTCTAAAAGCTCACATGGCCCACTCCAGAGGTTGAAGGCATGAGGCAGCTAGACACGTCTCCTCCAGGGTCCTTCTGCTGCTCCTGAGCCACTGGCCACATTACCCCCATTCATTCATTCATCCATTCTGTGATATTTATTGAGCACCTACTATGTTCCAGGCACTGTCCTAGGCACTAAGGATAGAGTAGTGAAGTAAACAGAAAGAAATCCCTGCCTTCATGGAGCTTAATATTCTAACATGAGACAATAATGGATAGGAAAAACATATGTAGCATGTTAGATTTGGAGAGGTGATATGGAGCAAAAATAAAGTAGGGAAGAGGGATAGGAGGTGTTGGGGATGCTTGAAATTTTAGGTTAGCATGGCCAGGAAAGCCACATCCTGTCCCTGGCCACCACAGATGAGCTCATAGCCCCTGCCACTCTGATCTCTGTCCTTGGAAGATGCACCAGGTCCATGGGTAGGTGGCTGGGTCATGCCTTTGGGGGGCTCTGAGCAATACTAACAAGAACCTGCGTGCCTGGGCTTGGCTGTCGGGGATGGTGCTGACATGGGGCTGGTTCCTGGGGTTGGGGTGTTCCAGGGGTTCTCTAGAGGCTGGTTCTGGCTTGGCTGCCAGGAAGCCGTGCACCAGAGCAAACCGTCCACGGGCCTCCTGCTTGCTTCTGGTGACACTGAGACCCCACATGTCTGTATTCCTCACAG
Seq C2 exon
GGAAGTTGAAAATACCATCTCCGTGGATCGGCCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529-CAPN3:NM_024344:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(44.5=100),PF156271=CEP76-C2=PU(67.6=98.6)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0),PF156271=CEP76-C2=FE(12.0=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:
ATGCACGGGAACAAGCAGC
R:
CGATCCACGGAGATGGTATTTTCA
Band lengths:
239-977
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)