GgaALTA0001785-2/4 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000003661 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr17:6496223-6496855:-
Coord C1 exon
chr17:6496668-6496855
Coord A exon
chr17:6496251-6496315
Coord C2 exon
chr17:6496223-6496250
Length
65 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
GTGATAAAACTTATTTACAGAGC
3' ss Score
4.56
Exon sequences
Seq C1 exon
AAAGCTCAGGAATATGGCTATGGTCAGTCCTTAATGGCACGCCTGCAGAGACACCTAGAAGAACAAGTACAGAATAATCTTTTACGACGTCTGCCAGTTGTGCAGCTGACTGTGCAGTACCGAATGCACCCTGACATCTGCCTTTTCCCATCCAGTTATATTTATGACAAGACTCTAAAGACTGACAA
Seq A exon
AGCAACAGAAGAGAACAGATGTTCTTCAGAGTGGCCATTCCAGCCCTATCTTGTTTTTGATGTAG
Seq C2 exon
GAGATGGCCATGAGGAGCGTGACAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003661-43-38,43-37,43-36,43-35-2/4
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=0.125
Domain overlap (PFAM):
C1:
PF130871=AAA_12=PU(27.7=88.9)
A:
NA
C2:
PF130871=AAA_12=FE(15.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCTGCAGAGACACCTAGAA
R:
TCTTTGTCACGCTCCTCATGG
Band lengths:
177-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]