HsaINT0133979 @ hg38
Intron Retention
Gene
ENSG00000107317 | PTGDS
Description
prostaglandin D2 synthase [Source:HGNC Symbol;Acc:HGNC:9592]
Coordinates
chr9:136978993-136979299:+
Coord C1 exon
chr9:136978993-136979132
Coord A exon
chr9:136979133-136979222
Coord C2 exon
chr9:136979223-136979299
Length
90 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
CTGAGGTCACCCACCTACAGGAA
3' ss Score
6.15
Exon sequences
Seq C1 exon
TTCCTGGGGCGCTGGTTCAGCGCGGGCCTCGCCTCCAACTCGAGCTGGCTCCGGGAGAAGAAGGCGGCGTTGTCCATGTGCAAGTCTGTGGTGGCCCCTGCCACGGATGGTGGCCTCAACCTGACCTCCACCTTCCTCAG
Seq A exon
GTGGGACAGCGGGCAGGTGGGTTTCTGGGACGGAGAGGTCCAGGGACACCCTCGGGCCTAACCCCTGACCCTGAGGTCACCCACCTACAG
Seq C2 exon
GAAAAACCAGTGTGAGACCCGAACCATGCTGCTGCAGCCCGCGGGGTCCCTCGGCTCCTACAGCTACCGGAGTCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107317:ENST00000371625:2
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=0.081
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=PU(31.0=95.7)
A:
NA
C2:
PF0006118=Lipocalin=PD(42.5=55.7),PF0006118=Lipocalin=PU(13.6=13.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGCTCCGGGAGAAGAAGG
R:
GGACTCCGGTAGCTGTAGGAG
Band lengths:
171-261
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