HsaALTA1027376-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000135773 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:HGNC:1486]
Coordinates
chr1:230759512-230762786:+
Coord C1 exon
chr1:230759512-230759630
Coord A exon
chr1:230762653-230762661
Coord C2 exon
chr1:230762662-230762786
Length
9 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GTCTTTTTCCTGGGCAACAGTTC
3' ss Score
4.43
Exon sequences
Seq C1 exon
GAGACTGCTGGCTATTAGCCGCCATCGCCTCCCTTACGCTTAATCAAAAAGCACTGGCCAGAGTCATCCCCCAGGACCAAAGCTTTGGCCCTGGTTATGCCGGGATATTCCATTTCCAG
Seq A exon
TTCTGGCAG
Seq C2 exon
CACAGTGAGTGGCTGGACGTGGTGATCGATGACCGCCTGCCCACCTTCAGGGACCGCTTGGTTTTCCTCCACTCTGCCGACCACAACGAGTTCTGGAGCGCCTTGCTGGAAAAAGCCTACGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135773-6-4,6-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(13.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGCACTGGCCAGAGTCATC
R:
GTCATCGATCACCACGTCCAG
Band lengths:
105-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains