HsaINT0134070 @ hg38
Intron Retention
Gene
ENSG00000073756 | PTGS2
Description
prostaglandin-endoperoxide synthase 2 [Source:HGNC Symbol;Acc:HGNC:9605]
Coordinates
chr1:186679322-186680427:-
Coord C1 exon
chr1:186680239-186680427
Coord A exon
chr1:186679439-186680238
Coord C2 exon
chr1:186679322-186679438
Length
800 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTGCTGTCCTTTAATTGCAGCAA
3' ss Score
8.46
Exon sequences
Seq C1 exon
GACCAATTGTCATACGACTTGCAGTGAGCGTCAGGAGCACGTCCAGGAACTCCTCAGCAGCGCCTCCTTCAGCTCCACAGCCAGACGCCCTCAGACAGCAAAGCCTACCCCCGCGCCGCGCCCTGCCCGCCGCTGCGATGCTCGCCCGCGCCCTGCTGCTGTGCGCGGTCCTGGCGCTCAGCCATACAG
Seq A exon
GTGAGTACCTGGCGCCGCGCACCGGGGACTCCGGTTCCACGCACCCGGGCAGAGTTTCCGCTCTGACCTCCTGGGTCTATCCCAGTACTCCGACTTCTCTCCGAATAGAGAAGCTACGTGACTTGGGAAAGAGCTTGGACCGCTAGAGTTCGAAAGAACTCCGTGGATATTCCAGCTTTCCCACAAGCACTGATCATTATGAGCCAGTTACTTAACCGATCTGAGACACTCTCACCTCCTAAATAGGGATAGATGATACTAATTTGCAGGTTGTCATTATGATAAGACAGGATCTGATCAATATATGTGAATTGTTTATATTTGGAACCTTTTTATTGAGTGGAAGAAGTTGTTTTAAATATTCTAGTCAGTTCTTTCCTGCTCCCAGGAAAGCCCGGATTATGTTTTAAGATAAGCAAAATGTCTTAAAAGTAAGCTGTTTTACTTTGAATTTTTCCCTAAATGTTGATTAGTGTACTAGATCCATTTTAATTTGGAAAGTGAAGTGCTACTTATTTGAACTTCTTAAAAATGCTAATTTTAACATCTAAAGAGTTAACTAAGAAAAGCTTAGTAACATGATGTACCAAGTTGAATATGCTGTTATCCTTATTTAGAATAGAAAATTGGTATTTCTACGTTTTATCCATTCTAAGGCAGGTTAAAAAATTGTATTTCCATGACTACCTATATATTTCTTGAATTTATTATTGTAAAGTTGATTCATAGTCAAACAATTAAATGTTTAAATTAAGATTAAGACACTAGAGAATGATTTATTTGCTGTCCTTTAATTGCAG
Seq C2 exon
CAAATCCTTGCTGTTCCCACCCATGTCAAAACCGAGGTGTATGTATGAGTGTGGGATTTGACCAGTATAAGTGCGATTGTACCCGGACAGGATTCTATGGAGAAAACTGCTCAACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000073756:ENST00000367468:1
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:
PF0000822=EGF=WD(100=82.5)
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:
ACCAATTGTCATACGACTTGCAGT
R:
GTGTTGAGCAGTTTTCTCCATAGA
Band lengths:
305-1105
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