DreINT0121672 @ danRer10
Intron Retention
Gene
ENSDARG00000004539 | ptgs2a
Description
prostaglandin-endoperoxide synthase 2a [Source:ZFIN;Acc:ZDB-GENE-020530-2]
Coordinates
chr2:21264631-21265101:-
Coord C1 exon
chr2:21264797-21265101
Coord A exon
chr2:21264715-21264796
Coord C2 exon
chr2:21264631-21264714
Length
82 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
AAGATTCTGTCGTGTTTTAGGTG
3' ss Score
10.14
Exon sequences
Seq C1 exon
CAAGGTCCCATTTGGTTGAAAGTCCACCGACGTACAATGCTGATTATGGCTACAAAAGCTGGGAAGCGTACTCTAATTTGTCCTATTACACCCGCACCCTTGCCCCGTTGCCCCAAAACTGCCCAACGCCTGATCTCCCAAATGCCAAGCAGGTGGTGGAGCAGGTGCTGTTGAGGAAGCAGTTCATCCCTGATCCACAGAGGAGCAGTCTCATGTTTGCTTTCTTCGCCCAGCATTTCTCTCACCAGTTCTTCAAGTCGGACTTTAAAAAGGGACCAGCCTTCACCAAAGCCCTGGGTCATGGA
Seq A exon
GTAAGTGGCATTCAAATTTACATCTGATTCAAAGTGCATACAAGACTGCAGGTCATATGCTAAAGATTCTGTCGTGTTTTAG
Seq C2 exon
GTGGATCTGGGGCATATTTATGGAGAGACGCTGGAGGTTCAACACAAACTTCGTCTGTTTAAAGATGGAAAGCTTAAATACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004539:ENSDART00000006870:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=WD(100=77.5),PF0309810=An_peroxidase=PU(3.3=11.8)
A:
NA
C2:
PF0309810=An_peroxidase=FE(7.3=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:
GGTGCTGTTGAGGAAGCAGTT
R:
GAACCTCCAGCGTCTCTCCAT
Band lengths:
182-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]