HsaINT0133980 @ hg38
Intron Retention
Gene
ENSG00000107317 | PTGDS
Description
prostaglandin D2 synthase [Source:HGNC Symbol;Acc:HGNC:9592]
Coordinates
chr9:136979223-136980062:+
Coord C1 exon
chr9:136979223-136979299
Coord A exon
chr9:136979300-136979945
Coord C2 exon
chr9:136979946-136980062
Length
646 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
GTTGTCTCTTGGGTTCCCAGACT
3' ss Score
6.79
Exon sequences
Seq C1 exon
GAAAAACCAGTGTGAGACCCGAACCATGCTGCTGCAGCCCGCGGGGTCCCTCGGCTCCTACAGCTACCGGAGTCCCC
Seq A exon
GTGAGTGGGGCCTCCACCGGCCCCCTGGGCCCAGCCTGGGGGCGACACTTGCCGGGACGACTCTGGGCCAGCCCCCTGCCGCGGAGATCCATGGGGTGGGAGGTGATGGCTGCCCCACCAGCGTCAGAGGCAAAGGCCAGGCCTGGGCGTGACTACCCATGCACAAGTGTTAGGGACAGAGAGACCCTTCCTCCAGGGGGTTGGATCCTCTCTGGAGCCCACCATTGTCTTGTCAGGCCCCTTCCCTGCCCTCTGGAGTTTTCCCCACATAAGCAGCCCCCCAAGGCCCCTCCATATGCCTCCTCCCAATTCTCCTCCCCAGGACCCAGGGGTTTCCTCACTCCCACCTGGGGAATGGCTCCCACGGGGAAACCTCTTCACTTCCGGTTCTGGCAGCGACTTCTGCGGCTGCACCAGGAATCCTGGTTTTCTGAGCCTGGCTCCCCCAGATTCTGGTTTGGGGACAGGGTTCACAGGCTGTGCAGGCGAGAGCAGGGCACTGGCTGGAGAGCAGCCGGGTGGGGGAGCATCCCGGGCCAGCCGAGGGGCTGAGTGCCCCCAAAGCCCACAGGTGCACCCCTTCCCTGAAGCAGAGGTGAGGTTTGGGGGGCTGAGTCCCCGACAGGGTTGTCTCTTGGGTTCCCAG
Seq C2 exon
ACTGGGGCAGCACCTACTCCGTGTCAGTGGTGGAGACCGACTACGACCAGTACGCGCTGCTGTACAGCCAGGGCAGCAAGGGCCCTGGCGAGGACTTCCGCATGGCCACCCTCTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107317:ENST00000371625:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=PD(42.5=55.7),PF0006118=Lipocalin=PU(13.6=13.1)
A:
NA
C2:
PF0006118=Lipocalin=FE(26.9=100)
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:
AAACCAGTGTGAGACCCGAAC
R:
TGTAGAGGGTGGCCATGCG
Band lengths:
191-837
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