DreINT0121671 @ danRer10
Intron Retention
Gene
ENSDARG00000004539 | ptgs2a
Description
prostaglandin-endoperoxide synthase 2a [Source:ZFIN;Acc:ZDB-GENE-020530-2]
Coordinates
chr2:21264797-21265356:-
Coord C1 exon
chr2:21265213-21265356
Coord A exon
chr2:21265102-21265212
Coord C2 exon
chr2:21264797-21265101
Length
111 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
CTGTTTTTCTTGTTTTACAGCAA
3' ss Score
11.08
Exon sequences
Seq C1 exon
CTGAGCTTCTCACACGCATCAAATCAGCTCTGAAACCAAGACCAAATGTAGTGCATCATATTTTAACACATTATAAATCAATCTGGGATATCATCAACAGCATCTCTTACCTGAGGGATGGCATAATGCGCTATATCCTGTTGT
Seq A exon
GTAAGTTGAATGAAATCACTTCTGCATTGGATTTCCAACAAAATTGTACGTAATTGTTTTTAAAAAGCATAGAAATCCGCATAAAATTAAACTGTTTTTCTTGTTTTACAG
Seq C2 exon
CAAGGTCCCATTTGGTTGAAAGTCCACCGACGTACAATGCTGATTATGGCTACAAAAGCTGGGAAGCGTACTCTAATTTGTCCTATTACACCCGCACCCTTGCCCCGTTGCCCCAAAACTGCCCAACGCCTGATCTCCCAAATGCCAAGCAGGTGGTGGAGCAGGTGCTGTTGAGGAAGCAGTTCATCCCTGATCCACAGAGGAGCAGTCTCATGTTTGCTTTCTTCGCCCAGCATTTCTCTCACCAGTTCTTCAAGTCGGACTTTAAAAAGGGACCAGCCTTCACCAAAGCCCTGGGTCATGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004539:ENSDART00000006870:3
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=0.020
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0309810=An_peroxidase=WD(100=77.5),PF0309810=An_peroxidase=PU(3.3=11.8)
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:
CTGAGCTTCTCACACGCATCA
R:
AAGGGTGCGGGTGTAATAGGA
Band lengths:
245-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]