DreINT0133565 @ danRer10
Intron Retention
Gene
ENSDARG00000022996 | setx
Description
senataxin [Source:ZFIN;Acc:ZDB-GENE-070402-1]
Coordinates
chr21:3801040-3801379:+
Coord C1 exon
chr21:3801040-3801132
Coord A exon
chr21:3801133-3801220
Coord C2 exon
chr21:3801221-3801379
Length
88 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGA
5' ss Score
5.73
3' ss Seq
TGCGTTTCTACATTTCTCAGCTC
3' ss Score
6.57
Exon sequences
Seq C1 exon
CGAGACTGCTCAGAAGCGCTGCTCCCTCAGCTGGCCCTTCAAGCCCTACAAAGTGTTTGACGTGATGGATGGCAGAGAGACCAAGGAGAGAGA
Seq A exon
GTAAGAAATGGAGGAACATGGGTGGAATGTGGACCATGTAAAGCCTCTATTTTTTTAACCTTTTATTGTGCGTTTCTACATTTCTCAG
Seq C2 exon
CTCATTTATCAACCATAAAGAGGTCAGTCTGGTGGGGCTGCTATTGAAGCTGCTGTGTAAGGAGCAGGCGGTGCGAGTGGGTGTCATCACACCATACAACGCCCAGAAACATCGGATACTGGACGCCATCAAGACTTCAGGCATCAACAAGCAGCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022996:ENSDART00000149777:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(15.9=100)
A:
NA
C2:
PF130871=AAA_12=FE(27.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTGATGGATGGCAGAGAGA
R:
CCTGAAGTCTTGATGGCGTCC
Band lengths:
175-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]