HsaINT0134068 @ hg19
Intron Retention
Gene
ENSG00000095303 | PTGS1
Description
prostaglandin-endoperoxide synthase 1 (prostaglandin G/H synthase and cyclooxygenase) [Source:HGNC Symbol;Acc:9604]
Coordinates
chr9:125143943-125146034:+
Coord C1 exon
chr9:125143943-125144026
Coord A exon
chr9:125144027-125145787
Coord C2 exon
chr9:125145788-125146034
Length
1761 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
CAGGTGGCCCCATCCCACAGGTG
3' ss Score
8.29
Exon sequences
Seq C1 exon
GTAGACCTCGGCCACATTTATGGAGACAATCTGGAGCGTCAGTATCAACTGCGGCTCTTTAAGGATGGGAAACTCAAGTACCAG
Seq A exon
GTAGTGCTGGGCCAGGGGGTAGGGCAGAGGGAGGGGTCTCCCATGGTCTTCCCTGGCAAAGACTGCTTGGGGCGGGGGTCTGGGTCATGTCCTGAGAGGGCCAACCACGGGAGTGGGAAGCTTGTGCCAGGAGCGACAGTATACGCTGGGAGGAGGCAGCAGGTATGAGAAGCCAGGGAGGAGCAGACGTGGCCTCCCATGTCAGCCAGGGAGGTGGATTTTGGAGCTCAACAGGAGATGAACATTTGTAGTCTGCATTTATTTATTTAATTATTCCACAATATTAATTGGACACGAGAATATACCTGGCACAGGTGATTGAGTAGTGACCATTATAGTTAATGGGCCCTGCCCTCAAAAAACCACAGGCAAACTCTAGGATGTTCATTCTATGAGGGCTTTTGTTTAAATCAGAACGGTCCAACAGAAATATAATGTGAACCACATACATAGTTAAAATTTTCTAATGTCCATATTAAAAGAGGGAAAAAGAAACAGGTGAAATGATTTTAATAATACATTTTACTTAATGCAATATGTCCAGGTAATTAGCATTTTAGCATGTAATCAATACATTATTAATAAAATATGTCACATTCTTTTTTCATGCTGAAGCTTCAAAATCTGGTGTATATTTCACACTCACAGGGCATCTCAATTTGGATGCTCTATTTTCACTGGAGTGATCTAATCTGTATTAAGATTTCATAAAATGTACAGCTGAATAAGTAGAGTGACATGTCCGACTTGTTCCACGCATACTTAAAGGTTTTCCAATAGCTGAAGTATCAGTTTTAAAATTCAAATAGAAATTAAGATAAACCTAAATAAAATAAATTAAGTAACATTCAGTTCTTCATTCACACTAGCCAAATTTCTAGTGCTCAGTAGCTACACGTGGCTAGTGGCTACCATATTGGATCGTACAAATCTTAGGCAAGCACCAAAACAAAGTTTGATGCTGAATCTTTAGGGCTAAGAACAGTACTTGGCATGTAGTAGTCTCTTGGCATGTATTTACTGAATGAATGAAGAAGCTGCCATATAATTAGGTACACTTGTAGCTGCCACCAAGGAGAAGCTGTGAGTGCCACTAGAGTGTTTGGATGATGGGTAAAACTTCCCTAGGAAGTTACAAATAAACCCAGAGTTGCATAAAGGATGAGGAGGAGTTAGGGATGCTAAGAATGGGAGAGGGCTTTCCAGGTAGAGGGTTTAGCAAGTACAAAAGCTTAGAGGTGGAGAACAGCTTGGTGACTTGGAGGGAGTGTAAAAATGGGAGCGTTTGCTGAGCCTAGTGATGGAGCGTAAGAATGACTTTACAGGAAGGTGGAGATGTCTGTGGGGACCGTGTTAAGGAATTCTACTTTCTGCCAAGAGCAGAGAGAGTATTTGGAAAGGTTTTAAGTCAGCTCATGATGCAAGATTTGTTGTTTTTTTTTTTTTAAGTTTTTTTTTTCTTTTTTTTTTTTTTCTTTTTTGCTTGGGTGCAGTGCAGAGACTGGCCTGTCTGGGGATAGGAGTGGAAATAGGGAGCCCACTTAGGGAAAGGAGTCAGAGTGGAAGATGAGCGGGGGTTGCTTGAGGTAGTGGTGGTAGAGATGGAGAGCAGGGGACTGATTTTAAGAGACATTTTGGAGGTGGAATCAACAGCCTTGGCTGAGGGGAACTGGCAGCTGGAGGCAGGAGTGGGAGGGAGTTGGTTGTGGGCAGCTGTGGGTGACCCCCAACCCCAGGTTGCCAGGTGGCCCCATCCCACAG
Seq C2 exon
GTGCTGGATGGAGAAATGTACCCGCCCTCGGTAGAAGAGGCGCCTGTGTTGATGCACTACCCCCGAGGCATCCCGCCCCAGAGCCAGATGGCTGTGGGCCAGGAGGTGTTTGGGCTGCTTCCTGGGCTCATGCTGTATGCCACGCTCTGGCTACGTGAGCACAACCGTGTGTGTGACCTGCTGAAGGCTGAGCACCCCACCTGGGGCGATGAGCAGCTTTTCCAGACGACCCGCCTCATCCTCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095303-PTGS1:NM_080591:7
Average complexity
IR-S
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:
PF0309810=An_peroxidase=FE(14.0=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(42.5=100)
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:
GACCTCGGCCACATTTATGGA
R:
CTATGAGGATGAGGCGGGTCG
Band lengths:
328-2089
Functional annotations
There are 0 annotated functions for this event
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)