HsaINT0134061 @ hg19
Intron Retention
Gene
ENSG00000095303 | PTGS1
Description
prostaglandin-endoperoxide synthase 1 (prostaglandin G/H synthase and cyclooxygenase) [Source:HGNC Symbol;Acc:9604]
Coordinates
chr9:125133229-125133551:+
Coord C1 exon
chr9:125133229-125133370
Coord A exon
chr9:125133371-125133464
Coord C2 exon
chr9:125133465-125133551
Length
94 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
CTCATCTCTCTCCTCTGCAGGGA
3' ss Score
11.74
Exon sequences
Seq C1 exon
AGGTGACAGCTGGAGGGAGGAGCGGGGGTGGAGCCGGGGGAAGGGTGGGGAGGGGATGGGCTGGAGCTCCGGGCAGTGTGCGAGGCGCACGCACAGGAGCCTGCACTCTGCGTCCCGCACCCCAGCAGCCGCGCCATGAGCC
Seq A exon
GTGAGTGCGACCCCGGTGCCCGGTGGGGAATTTTCTTGGCCTCCTGGTGGAGCCTTGAATGCCAGGCTCAGCCCCTCATCTCTCTCCTCTGCAG
Seq C2 exon
GGAGTCTCTTGCTCTGGTTCTTGCTGTTCCTGCTCCTGCTCCCGCCGCTCCCCGTCCTGCTCGCGGACCCAGGGGCGCCCACGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095303-PTGS1:NM_080591:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.028
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACAGCTGGAGGGAGGAG
R:
AGCAGGAACAGCAAGAACCAG
Band lengths:
174-268
Functional annotations
There are 1 annotated functions for this event
PMID: 12242329
This event
Comparison of canine COX-3 (with IR) activity with murine COX-1 and -2 demonstrates that this enzyme is selectively inhibited by analgesic/antipyretic drugs such as acetaminophen, phenacetin, antipyrine, and dipyrone, and is potently inhibited by some nonsteroidal antiinflammatory drugs. [in Stamm et al, wrongly cataloged as soluble variant]
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)