DreINT0121670 @ danRer10
Intron Retention
Gene
ENSDARG00000004539 | ptgs2a
Description
prostaglandin-endoperoxide synthase 2a [Source:ZFIN;Acc:ZDB-GENE-020530-2]
Coordinates
chr2:21265213-21265551:-
Coord C1 exon
chr2:21265435-21265551
Coord A exon
chr2:21265357-21265434
Coord C2 exon
chr2:21265213-21265356
Length
78 bp
Sequences
Splice sites
5' ss Seq
CCCGTAAGT
5' ss Score
9.09
3' ss Seq
GTTTTTTTTCTCCCTTACAGCTG
3' ss Score
13.02
Exon sequences
Seq C1 exon
ACGACCCTTGCTGTGCACAGCCTTGCCAAAACCAGGGCGTGTGTTTATCCAAGGGAGCTGATGCTTATGAATGTGACTGCACCAGGACAGGATATTATGGTGAAAACTGCACTACCC
Seq A exon
GTAAGTTCAGCCATGGGTTTCTTTACATTAATGCAAACTTTACACAGAAGTCAACACTGTTTTTTTTCTCCCTTACAG
Seq C2 exon
CTGAGCTTCTCACACGCATCAAATCAGCTCTGAAACCAAGACCAAATGTAGTGCATCATATTTTAACACATTATAAATCAATCTGGGATATCATCAACAGCATCTCTTACCTGAGGGATGGCATAATGCGCTATATCCTGTTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004539:ENSDART00000006870:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=82.5)
A:
NA
C2:
NO
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:
TGACTGCACCAGGACAGGATA
R:
CGCATTATGCCATCCCTCAGG
Band lengths:
174-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]