HsaINT0134073 @ hg38
Intron Retention
Gene
ENSG00000073756 | PTGS2
Description
prostaglandin-endoperoxide synthase 2 [Source:HGNC Symbol;Acc:HGNC:9605]
Coordinates
chr1:186677649-186678404:-
Coord C1 exon
chr1:186678261-186678404
Coord A exon
chr1:186677831-186678260
Coord C2 exon
chr1:186677649-186677830
Length
430 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTAGCTTTCTCATTTTTCAGGTA
3' ss Score
11.11
Exon sequences
Seq C1 exon
CCAGATCACATTTGATTGACAGTCCACCAACTTACAATGCTGACTATGGCTACAAAAGCTGGGAAGCCTTCTCTAACCTCTCCTATTATACTAGAGCCCTTCCTCCTGTGCCTGATGATTGCCCGACTCCCTTGGGTGTCAAAG
Seq A exon
GTGAGTAAGAAGAATCCATTAGAGATGTATTAACTATAAGACGGGCTGCATTGCTGCCAAAAAAAAAAATTGACCTTAGACTACCATTTATTTATTAACAAAAGCAGTTTTTACTTTTAGCATGGTTATCTATGGGTATTTTTTAAAGTATGAGTCTATATAAACTATTATGTAAAAGCAAATGAGCGTCTTGGTATAATGTCTTAATATTTTCAAATTATTTCTTTAGAAATGAAATAATTCTAATTAAAATAGATAAAATCATTCAGTAAGAAGTTGTTCCACCATATCTTAGAACTGTTGTTTATATTATGATCCTATTCACAATTGTAATTCTCATATAAATGAAGAATTCTTGGTAGATTGACAGTCACCATCTCCTTTCTTGAATACATAGATGGATTCTTACCTTAGCTTTCTCATTTTTCAG
Seq C2 exon
GTAAAAAGCAGCTTCCTGATTCAAATGAGATTGTGGAAAAATTGCTTCTAAGAAGAAAGTTCATCCCTGATCCCCAGGGCTCAAACATGATGTTTGCATTCTTTGCCCAGCACTTCACGCATCAGTTTTTCAAGACAGATCATAAGCGAGGGCCAGCTTTCACCAACGGGCTGGGCCATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000073756:ENST00000367468:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.046
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=PU(6.1=55.1)
A:
NA
C2:
PF0309810=An_peroxidase=FE(13.5=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:
CCAGATCACATTTGATTGACAGTCC
R:
CCCAGCCCGTTGGTGAAAG
Band lengths:
319-749
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