HsaINT0134071 @ hg38
Intron Retention
Gene
ENSG00000073756 | PTGS2
Description
prostaglandin-endoperoxide synthase 2 [Source:HGNC Symbol;Acc:HGNC:9605]
Coordinates
chr1:186679058-186679438:-
Coord C1 exon
chr1:186679322-186679438
Coord A exon
chr1:186679202-186679321
Coord C2 exon
chr1:186679058-186679201
Length
120 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
CTTTCTTCGTCTTCTTGCAGCGG
3' ss Score
11.45
Exon sequences
Seq C1 exon
CAAATCCTTGCTGTTCCCACCCATGTCAAAACCGAGGTGTATGTATGAGTGTGGGATTTGACCAGTATAAGTGCGATTGTACCCGGACAGGATTCTATGGAGAAAACTGCTCAACAC
Seq A exon
GTAAGTTTGTCCTTTGGTTGCCTCATTAGGAGTGGGGCTGGATACAGTTATCATTGTATAGATTTGTGTCTTATAATGAGTCCCATTAATTTCTCCCTCCCTTTCTTCGTCTTCTTGCAG
Seq C2 exon
CGGAATTTTTGACAAGAATAAAATTATTTCTGAAACCCACTCCAAACACAGTGCACTACATACTTACCCACTTCAAGGGATTTTGGAACGTTGTGAATAACATTCCCTTCCTTCGAAATGCAATTATGAGTTATGTGTTGACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000073756:ENST00000367468:2
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=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=82.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAATCCTTGCTGTTCCCACC
R:
AATTGCATTTCGAAGGAAGGGA
Band lengths:
242-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development