HsaEX0012392 @ hg19
Exon Skipping
Gene
ENSG00000135773 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:1486]
Coordinates
chr1:230910300-230914879:+
Coord C1 exon
chr1:230910300-230910377
Coord A exon
chr1:230911001-230911133
Coord C2 exon
chr1:230914719-230914879
Length
133 bp
Sequences
Splice sites
3' ss Seq
TGGCACTCTTTGTCATCCAGGTT
3' ss Score
7.14
5' ss Seq
GAAGTAAAC
5' ss Score
0.76
Exon sequences
Seq C1 exon
TTCTCCGGAGTGGCGTTCTGTTGGTCCAGCTGAGCAGAAGCGTCTGTGTCACACTGCTCTGGATGATGGGGAATTCTG
Seq A exon
GTTTACACAGTGAATTTGAAGACAGGCAGCCCTACTGCTCACAGGATCCATTCCCTCCACACCCATCTTGATGAGAGGTACCTTTGAAGGCAGCTGCCCTGAGAGCATCTAAAGATATCGACCTACGTAGGAA
Seq C2 exon
GATGGCATTTAAGGACTTCAAGGCCCACTTTGATAAAGTGGAGATCTGCAACCTCACTCCCGATGCCCTGGAGGAAGACGCGATCCACAAATGGGAGGTGACGGTCCATCAGGGAAGCTGGGTTCGCGGCTCCACGGCTGGGGGCTGCCGCAATTTCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135773-'7-8,'7-7,8-8
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
Show PDB structure
Features
Disorder rate (Iupred):
C1=0.123 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(12.7=100)
A:
PF0064816=Peptidase_C2=PD(1.1=60.0)
C2:
PF0064816=Peptidase_C2=PD(6.4=34.5),PF0106717=Calpain_III=PU(16.3=43.6)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
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:
TTCTCCGGAGTGGCGTTCT
R:
AGGAAATTGCGGCAGCCC
Band lengths:
237-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)