DreINT0109304 @ danRer10
Intron Retention
Gene
ENSDARG00000034189 | oxsr1a
Description
oxidative stress responsive 1a [Source:ZFIN;Acc:ZDB-GENE-070620-25]
Coordinates
chr2:24058020-24058299:+
Coord C1 exon
chr2:24058020-24058153
Coord A exon
chr2:24058154-24058250
Coord C2 exon
chr2:24058251-24058299
Length
97 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGTG
5' ss Score
2.16
3' ss Seq
ATACTACTAATTTTTAACAGGCC
3' ss Score
7.63
Exon sequences
Seq C1 exon
GTTCTCATGTTAACCCTGCAGAATGACCCTCCGTGTTTAGAGACTGGAGTTACAGACAAAGAGATGGTTAAAAAGTATGGTAAATCTTTCCGGAAGATGATCTCTTTGTGCCTCCAGAAGGATCCAGAAAAACG
Seq A exon
GTAGTGCATTTATTTCCTGAAGTTCTGTTAAGAGTCAAATCTTCACTTCAAAATATAAAAACAATATTGTCTTATTGATACTACTAATTTTTAACAG
Seq C2 exon
GCCTACAGCTGCTGAACTCTTGAAACACAAGTTCTTCACAAAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000034189:ENSDART00000047073:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(11.8=80.0)
A:
NA
C2:
PF0006920=Pkinase=PD(4.4=70.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCCTGCAGAATGACCCTCC
R:
TGGCTTTTGTGAAGAACTTGTGT
Band lengths:
170-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]