DreINT0133570 @ danRer10
Intron Retention
Gene
ENSDARG00000022996 | setx
Description
senataxin [Source:ZFIN;Acc:ZDB-GENE-070402-1]
Coordinates
chr21:3784327-3784756:+
Coord C1 exon
chr21:3784327-3784436
Coord A exon
chr21:3784437-3784536
Coord C2 exon
chr21:3784537-3784756
Length
100 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TGGTTCTCTTTCCTATCCAGGTG
3' ss Score
11.28
Exon sequences
Seq C1 exon
CTGATATGGTGGTTAGGGTCTTGTACAAGTTGCAGGATTGGCAGCAAACTTTGAGTTGGTCTGAGAAGTATCAGGGAACATATCTGCTTCTCGTTCATCCCGATGAAAAG
Seq A exon
GTAACTCGGCAACAAAACCACATATTTTATGATAAACAGCCTCTTGTGTCTTAAATTATTATTTACATTTCTTTACTACGTGGTTCTCTTTCCTATCCAG
Seq C2 exon
GTGCGTCGCTGGGCAATTGATCTAGCAAAAACCTTAAAGAGTGTGGACCGGGATGCCTATTATGACCTTCGGGAGATCTTCGCTTGCATGTTTCAAATAATCGAGCTTGGAATATCTTTAGATTTACCAGATTTGGATCCTGGGTGTTATGCAAGCGGAAAAGTGCCCATGCTGCCCTCTCACCTCTATGATGCAAAGAACAAGAAGAACTACTGGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022996:ENSDART00000149777:4
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:
PF127262=SEN1_N=FE(22.5=100)
A:
NA
C2:
PF127262=SEN1_N=PD(13.1=28.4)
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:
GTTGCAGGATTGGCAGCAAAC
R:
TTTCCGCTTGCATAACACCCA
Band lengths:
243-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]