DreINT0109313 @ danRer10
Intron Retention
Gene
ENSDARG00000027500 | oxsr1b
Description
oxidative stress responsive 1b [Source:ZFIN;Acc:ZDB-GENE-040426-723]
Coordinates
chr24:19938409-19938754:-
Coord C1 exon
chr24:19938653-19938754
Coord A exon
chr24:19938543-19938652
Coord C2 exon
chr24:19938409-19938542
Length
110 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
ATGTTTATGTGCGTTTGCAGGTG
3' ss Score
10.93
Exon sequences
Seq C1 exon
GTCAAAGGTTACGACTTCAAAGCAGACATCTGGAGTTTTGGGATCACAGCCATTGAACTGGCCACAGGCGCAGCTCCGTACCACAAATACCCTCCGATGAAG
Seq A exon
GTGAGCGGAAAAAAAATACAGCTCCAGAAGCAATCCTACAGCTGTTTACACACTGATGGAAACATGCTGTTTTTCTAGCATGCTTCACAGATGTTTATGTGCGTTTGCAG
Seq C2 exon
GTGTTGATGTTGACTCTCCAGAATGATCCGCCTTGCCTCGAGACTGGCATCACAGACAAAGAGATGGTGAAGAAATATGGAAAGTCTTTGAGGAAGATGATCTCGCAGTGTTTGCAGAAAGAGCCGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027500:ENSDART00000147004:7
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=0.244
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(12.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(16.0=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:
GTCAAAGGTTACGACTTCAAAGCA
R:
TTTCTCCGGCTCTTTCTGCAA
Band lengths:
234-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]