DreINT0133558 @ danRer10
Intron Retention
Gene
ENSDARG00000022996 | setx
Description
senataxin [Source:ZFIN;Acc:ZDB-GENE-070402-1]
Coordinates
chr21:3793868-3794172:+
Coord C1 exon
chr21:3793868-3793969
Coord A exon
chr21:3793970-3794059
Coord C2 exon
chr21:3794060-3794172
Length
90 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGA
5' ss Score
5.82
3' ss Seq
TCTTTTTTTCATTTGCATAGAGC
3' ss Score
7.56
Exon sequences
Seq C1 exon
GTAATTGTGGTGACATAAACCTGGTAAGACTGGGAAATGAAAGAACCATCTCAAAGTCACTAAAACCTTTCAGCCTCGACCACCAGACTAAAGCAAGAGCTC
Seq A exon
GTAAGAGATTTATTACTTCATGAAGTAACACCACATGCATATGTAGACATAACATTTACAGTTCAACTTTTCTTTTTTTCATTTGCATAG
Seq C2 exon
AGCGAGCCCAGCAAACTGTAGAATCTGATGTACACAGGCGGAAGGAGCAACTGGACCAGATGATTGAAAATCTCTCTCATCAATGTGCAAAAACCCAGAAGAATTCTACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022996:ENSDART00000149777:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.257 A=NA C2=0.395
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(11.9=100)
A:
NA
C2:
PF130861=AAA_11=FE(13.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTGTGGTGACATAAACCTGGT
R:
TCAATCATCTGGTCCAGTTGCT
Band lengths:
167-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]