HsaEX0057547 @ hg19
Exon Skipping
Gene
ENSG00000107290 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:445]
Coordinates
chr9:135211683-135221858:-
Coord C1 exon
chr9:135221648-135221858
Coord A exon
chr9:135218077-135218186
Coord C2 exon
chr9:135211683-135211902
Length
110 bp
Sequences
Splice sites
3' ss Seq
ACTTATTTTTTTCTTTTTAGACG
3' ss Score
9.65
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
Exon sequences
Seq C1 exon
GTTTTATGGGAATTAGAAACCTTACGTCTCATAAATCACTTTGAAAAATCCATGAAGGCAGAAATTGGAGATGATGATGAGTTATATATAGTAGACAATAATGGAGAGATGCCACTGTTTGACATCACTGGGCAAGACTTTGAAAATAAGCTTCGAGTTCCTCTTCTTGAAATACTGAAATATCCTTACTTGCTTCTACATGAACGTGTTA
Seq A exon
ACGAGTTATGTGTTGAAGCACTTTGTCGGATGGAACAAGCCAATTGCTCCTTTCAGGTGTTTGATAAACATCCAGGGATCTATTTGTTTTTAGTCCATCCCAATGAAATG
Seq C2 exon
GTTCGGCGTTGGGCTATCTTGACTGCAAGAAACTTGGGGAAAGTGGACAGAGATGATTATTATGACTTACAAGAAGTTTTACTTTGCCTTTTTAAAGTCATTGAGTTGGGGCTTTTAGAGAGTCCAGACATTTATACTTCTTCTGTCCTAGAGAAGGGTAAACTGATTCTTCTGCCCTCACACATGTATGATACTACCAACTACAAAAGCTATTGGTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107290-'5-9,'5-8,7-9
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF127262=SEN1_N=FE(26.8=100)
A:
PF127262=SEN1_N=FE(13.8=100)
C2:
PF127262=SEN1_N=FE(28.0=100)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTTCGAGTTCCTCTTCTTGA
R:
ACATGTGTGAGGGCAGAAGAA
Band lengths:
250-360
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)