HsaEX0057545 @ hg19
Exon Skipping
Gene
ENSG00000107290 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:445]
Coordinates
chr9:135136743-135145089:-
Coord C1 exon
chr9:135145002-135145089
Coord A exon
chr9:135144790-135144876
Coord C2 exon
chr9:135136743-135140372
Length
87 bp
Sequences
Splice sites
3' ss Seq
ATGGTTGTTATGTTTTCCAGCAA
3' ss Score
6.21
5' ss Seq
AAGGTGACC
5' ss Score
6.78
Exon sequences
Seq C1 exon
ATTCCTGGCAAGTTTGCAGAGATTGAATGTCACCATCACACGAGCCAAGTACAGCCTCTTCATCCTCGGACATTTGAGGACCCTGATG
Seq A exon
CAACTTCTTCCTAGGAGCTTTTGTGTACACGTGAACCATTCGCCTTTTTTCAGCCCAGAACCCAAGTATCTACACTGGGCTCTCAAG
Seq C2 exon
GAAAACCAGCATTGGAATCAGCTGATTCAGGATGCTCAGAAGCGTGGTGCCATTATTAAGACCTGTGACAAAAACTATAGACATGATGCAGTGAAGATTCTGAAACTCAAGCCTGTGCTGCAGAGAAGTCTCACTCACCCTCCTACCATAGCCCCAGAGGGGTCCAGACCCCAGGGTGGTTTGCCCAGCAGCAAGCTAGACAGTGGATTTGCCAAGACATCTGTTGCTGCTTCTCTATACCACACACCCTCTGACTCCAAGGAAATTACTCTTACTGTTACTTCAAAGGACCCTGAAAGACCTCCTGTTCATGACCAACTTCAGGACCCACGACTGCTGAAGAGGATGGGCATTGAGGTCAAAGGAGGAATATTCCTTTGGGATCCACAACCCTCGAGCCCCCAGCATCCTGGAGCAACACCTCCTACGGGCGAGCCGGGCTTCCCTGTCGTTCACCAGGACCTGAGCCATATACAGCAGCCCGCTGCTGTAGTGGCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107290-'35-40,'35-38,36-40
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.730
Domain overlap (PFAM):
C1:
PF130871=AAA_12=PD(0.1=0.0),PF130871=AAA_12=PD(81.2=86.7)
A:
NO
C2:
NO
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:
TCGGACATTTGAGGACCCTGA
R:
GGGCTATGGTAGGAGGGTGAG
Band lengths:
177-264
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)