DreINT0109314 @ danRer10
Intron Retention
Gene
ENSDARG00000027500 | oxsr1b
Description
oxidative stress responsive 1b [Source:ZFIN;Acc:ZDB-GENE-040426-723]
Coordinates
chr24:19937630-19938542:-
Coord C1 exon
chr24:19938409-19938542
Coord A exon
chr24:19937679-19938408
Coord C2 exon
chr24:19937630-19937678
Length
730 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTT
5' ss Score
4.72
3' ss Seq
GTATAATGTTTGCTTTTTAGGCC
3' ss Score
9.1
Exon sequences
Seq C1 exon
GTGTTGATGTTGACTCTCCAGAATGATCCGCCTTGCCTCGAGACTGGCATCACAGACAAAGAGATGGTGAAGAAATATGGAAAGTCTTTGAGGAAGATGATCTCGCAGTGTTTGCAGAAAGAGCCGGAGAAAAG
Seq A exon
GTGCTTAGCAAAGCTGCATGTTGTTGTTGTTGGGTCATCATGTAATAATAATATACAGGCGTTGCTGTATATTTGGGGTCTGTATGCTTTGTTTTTTATTAAATATGCTTGATTAGAAATATAATAAAAACATTTAGGTAATAAAATGTGATTTAAATTCACATTTAAACACTTGGCATACGCTGTAATTTTACAAAGTAGGACAGTAGAAATAATCAAGGCAACAAAGAGACAGACAGACAGACAGACAGACAGACAGACAATCAATCAAATACCACTGAACAGATTCTATTTTTACACGTTTTAAGCTATATGAAGCATATATAAATTTATTATATATTTTGACATTTCATATTTTTTCTGTGTTGGCAAAGCTGAATTTTCACCAGTTATTTGTCATATGATTTTTCAGATTTTTAACATGCTGATTTGCTCCTCAAGAAATATATGTATTTTTACCAGACCACTTTTGCAGCACTTTTAATAAATAGAATAACTCGGAAATGATCATGCATACGTTTTCTTTCACTTTTGATCGCTTTAGATATGTAAATGTGTGAGTATTTTAATGAGTAAAACTAGATGACTATGTTTATGCATCCATCTGTTATTCATGCTAAATATTTTAATTGCAAAAACCAAAGATATTTTTAAATGACTTTATGGTGACATTTAGATTTTTTTTTACACTTCTTTGAATTACAACAAATGTATAATGTTTGCTTTTTAG
Seq C2 exon
GCCGACATCATCAGAGCTCTTAAAACATAAATTCTTCCAGAAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027500:ENSDART00000147004:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.244 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(16.0=100)
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:
GTGTTGATGTTGACTCTCCAGA
R:
TTGGCTTTCTGGAAGAATTTATGT
Band lengths:
182-912
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]