HsaINT0134075 @ hg19
Intron Retention
Gene
ENSG00000073756 | PTGS2
Description
prostaglandin-endoperoxide synthase 2 (prostaglandin G/H synthase and cyclooxygenase) [Source:HGNC Symbol;Acc:9605]
Coordinates
chr1:186645599-186646048:-
Coord C1 exon
chr1:186645965-186646048
Coord A exon
chr1:186645846-186645964
Coord C2 exon
chr1:186645599-186645845
Length
119 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TTATTTATTTATTTTTTTAGATA
3' ss Score
9.79
Exon sequences
Seq C1 exon
GTGGACTTAAATCATATTTACGGTGAAACTCTGGCTAGACAGCGTAAACTGCGCCTTTTCAAGGATGGAAAAATGAAATATCAG
Seq A exon
GTATGCTTCCTTTGACTATTAAGACTTAGTTATTACCGCTTATACCCATATTTTAAAATCCCTAAAAATGTGTTCCTTAACTTTTTAACTGATGTTTATTTATTTATTTATTTTTTTAG
Seq C2 exon
ATAATTGATGGAGAGATGTATCCTCCCACAGTCAAAGATACTCAGGCAGAGATGATCTACCCTCCTCAAGTCCCTGAGCATCTACGGTTTGCTGTGGGGCAGGAGGTCTTTGGTCTGGTGCCTGGTCTGATGATGTATGCCACAATCTGGCTGCGGGAACACAACAGAGTATGCGATGTGCTTAAACAGGAGCATCCTGAATGGGGTGATGAGCAGTTGTTCCAGACAAGCAGGCTAATACTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000073756-PTGS2:NM_000963:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=FE(6.1=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(18.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGTGAAACTCTGGCTAGACA
R:
GCTCCTGTTTAAGCACATCGC
Band lengths:
257-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)