RnoINT0119737 @ rn6
Intron Retention
Gene
ENSRNOG00000007415 | Ptgs1
Description
prostaglandin-endoperoxide synthase 1 [Source:RGD Symbol;Acc:3439]
Coordinates
chr3:15560712-15560982:+
Coord C1 exon
chr3:15560712-15560788
Coord A exon
chr3:15560789-15560886
Coord C2 exon
chr3:15560887-15560982
Length
98 bp
Sequences
Splice sites
5' ss Seq
GTCGTGAGT
5' ss Score
7.82
3' ss Seq
ACTCTCTCTTCCCTCTGCAGGAA
3' ss Score
13.37
Exon sequences
Seq C1 exon
CTGGGGCAGTGCTGGAGTAACACCAGAAGAGCCAGCCGTTGGCGTTGCACATCCATCTACTCCCAGAGTCATGAGTC
Seq A exon
GTGAGTCCGACCCCAGCGGTGCCCCCACGCGCCCCGGAATTCGGTGGCCTGCAGGCGGAGCCTTGAACGTCAGGCTCAACTCTCTCTTCCCTCTGCAG
Seq C2 exon
GAAGGAGTCTCTCGCTCCAGTTTCCCCTGCTGCTGCTCCTGCTGCTGCTCCCACCACCCCCGGTACTGCTCACAGATGCTGGGGTACCCTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007415:ENSRNOT00000010218:1
Average complexity
IR
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GGCAGTGCTGGAGTAACACC
R:
TACCCCAGCATCTGTGAGCAG
Band lengths:
159-257
Functional annotations
There are 1 annotated functions for this event
PMID: 12242329
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]