DreINT0109295 @ danRer10
Intron Retention
Gene
ENSDARG00000034189 | oxsr1a
Description
oxidative stress responsive 1a [Source:ZFIN;Acc:ZDB-GENE-070620-25]
Coordinates
chr2:24062202-24062453:+
Coord C1 exon
chr2:24062202-24062254
Coord A exon
chr2:24062255-24062384
Coord C2 exon
chr2:24062385-24062453
Length
130 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
GTTACTCTCTCTCCATCTAGACA
3' ss Score
8.99
Exon sequences
Seq C1 exon
GAATACAAAGAAAGAGCTGAACGATATCAGATTTGAGTTCATGCCAGGGAGAG
Seq A exon
GTTTGTGCATTTTACGTACTGTCTGACTGTCTGTGCTTCTTCCTAAAGACTTCATTTCAGACAGATTGAACAATTTTGAAACTTTGTTTTTGATATAAATTGTTCTTTTGGTTACTCTCTCTCCATCTAG
Seq C2 exon
ACACAGCAGATGGAGTGTCTCAGGAGCTTGTGTCTGCTGGACTGGTGGATGGGAGAGATCTAGTCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000034189:ENSDART00000047073:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.158 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF122023=OSR1_C=FE(56.2=100)
A:
NA
C2:
PF122023=OSR1_C=PD(18.8=25.0)
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:
GAATACAAAGAAAGAGCTGAACGA
R:
CAATGACTAGATCTCTCCCATCCAC
Band lengths:
122-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]