HsaALTA0001463-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000126247 | CAPNS1
Description
calpain, small subunit 1 [Source:HGNC Symbol;Acc:1481]
Coordinates
chr19:36630477-36632122:+
Coord C1 exon
chr19:36630477-36631059
Coord A exon
chr19:36631899-36631901
Coord C2 exon
chr19:36631902-36632122
Length
3 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGC
5' ss Score
8.99
3' ss Seq
GTCCCCTTTTTTCCCCCCAGCAG
3' ss Score
9.64
Exon sequences
Seq C1 exon
GTGAGTCAAACCATACTCCAGGCCTCCAGGAGGTGTTTGTCGCGACAACACCTGCAGAGGGCCCGTGCGGAGTCCCTTAGTGAGCGGACCGAAAACCGCCACCCTGGAAGGATATTGGCATGCCCTAGGGTGAAAATTCACACTACGACACTCGGGGGGTGGGTCCCCTCCGAGTTCTCGTCCGCGGGTGCCTCCACCCAGACCTGAGGGGTGTCGGGAAGACCCCCGCCTACCGAGTCAGGGCGGGATTAAGACCTCCGGCGCTGGAAACGCGTAGGGCGGGGCCCAGACCTGGATCCAGCTAGCCGGGCGGTGTGGGGTGCGCATGCGCAATGTCCGCTTCGGCTCTAGGACCGCGCGGGCGACAGCAGGGCCGCGGTGCAGTGTCCGACCCGAGAGTTGCGGCCTGAGTCACCGGCCCCGCCCTCCGGAGCCGGACGCTGCGGGAGGCCCGGGAGCGGCAGTGGAACCGACTCCCAGAACTCCGGACGTGTGCGGCG
Seq A exon
CAG
Seq C2 exon
TGAGTCGCAGCCATGTTCCTGGTTAACTCGTTCTTGAAGGGCGGCGGCGGCGGCGGCGGGGGAGGCGGGGGCCTGGGTGGGGGCCTGGGAAATGTGCTTGGAGGCCTGATCAGCGGGGCCGGGGGCGGCGGCGGCGGCGGCGGCGGCGGCGGCGGTGGTGGAGGCGGCGGTGGCGGTGGAACGGCCATGCGCATCCTAGGCGGAGTCATCAGCGCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000126247-0-1,0-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.214
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
CAGAACTCCGGACGTGTGC
R:
ATTTCCCAGGCCCCCACC
Band lengths:
116-119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)