DreINT0121682 @ danRer10
Intron Retention
Gene
ENSDARG00000010276 | ptgs2b
Description
prostaglandin-endoperoxide synthase 2b [Source:ZFIN;Acc:ZDB-GENE-041014-323]
Coordinates
chr20:34221549-34222002:-
Coord C1 exon
chr20:34221919-34222002
Coord A exon
chr20:34221796-34221918
Coord C2 exon
chr20:34221549-34221795
Length
123 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CATGTTCTTGCTTTAATTAGATT
3' ss Score
7.73
Exon sequences
Seq C1 exon
GTTGATTTAGCTCATATATATGGACAAAACCTTGATCGACAACACAAGTTGAGACTTTTCAAGGATGGCAAGTTGAGATATCAG
Seq A exon
GTATGGAATATCTCTAACCCAAAATTAATCTCATTAAATCTCATCCTCATATAGCTTTGTTACTCACTTTTTTTTACTCTTGTGTTTTGCATTTGACTAAACTCATGTTCTTGCTTTAATTAG
Seq C2 exon
ATTCTGGATGGTGAGGTTTACCCTCCAACAGTCAGTGAGGTTCAAGTAGACATGCATTACCCTCCTCATGTACCTGAATCTCGTCGATTTGCTGTGGGTCATGAGGCCTTTGGGCTGGTTCCCGGACTTATGATGTACGCCACCATCTGGCTGCGTGAACATAACCGAGTGTGCGACATACTAAAGCAGGAGCATCCTGACTGGGATGATGAGAGGCTGTTTCAGACCTCAAGGCTCATCCTTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010276:ENSDART00000010028:6
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=0.012
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=FE(7.4=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(22.5=100)
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:
TGAGACTTTTCAAGGATGGCAAGT
R:
ACAGCCTCTCATCATCCCAGT
Band lengths:
255-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]