HsaEX0012361 @ hg19
Exon Skipping
Gene
ENSG00000162949 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:16663]
Coordinates
chr2:31009994-31030308:-
Coord C1 exon
chr2:31030168-31030308
Coord A exon
chr2:31029047-31029132
Coord C2 exon
chr2:31009994-31010223
Length
86 bp
Sequences
Splice sites
3' ss Seq
TTCATTATCCCATTTTGTAGATG
3' ss Score
7.41
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
Exon sequences
Seq C1 exon
AGACACCAGCACTGCTCTTTCTCCAAGACGGCCGGCCATGCTCTCCTCCTCTGCCAGTCTCCTCCACCACTCTCTAACCTGAGAGCCTGTGGAACCTGCCCGTCTCCCCTCCTCCATCAGACACACCTGCCTAGGAAACAG
Seq A exon
ATGGAAAAAGTGAGGGACCGGTGAGTGACTTGCTGCAAAAGTTTATACCAGATGCAAATGACAGAGCTGGAGTTCTGCTGTGCCTG
Seq C2 exon
GAAAGGACCTCGGAAGTCTTCTAAGGAGAGTCATGGCGTATTACCAGGAGCCTTCAGTGGAGACCTCCATCATCAAGTTCAAAGACCAGGACTTTACCACCTTGCGGGATCACTGCCTGAGCATGGGCCGGACGTTTAAGGATGAGACATTCCCTGCAGCAGATTCTTCCATAGGCCAGAAGCTGCTCCAGGAAAAACGCCTCTCCAATGTGATATGGAAGCGGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162949_CASSETTE4
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0064816=Peptidase_C2=PU(10.7=48.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCTCCATCAGACACACCT
R:
CTCATCCTTAAACGTCCGGCC
Band lengths:
180-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)