HsaINT0133982 @ hg19
Intron Retention
Gene
ENSG00000107317 | PTGDS
Description
prostaglandin D2 synthase 21kDa (brain) [Source:HGNC Symbol;Acc:9592]
Coordinates
chr9:139874635-139875307:+
Coord C1 exon
chr9:139874635-139874736
Coord A exon
chr9:139874737-139875284
Coord C2 exon
chr9:139875285-139875307
Length
548 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
CCTGGCTTCTTTCTTGGCAGATA
3' ss Score
10.4
Exon sequences
Seq C1 exon
GCCGAACCCAGACCCCCAGGGCTGAGTTAAAGGAGAAATTCACCGCCTTCTGCAAGGCCCAGGGCTTCACAGAGGATACCATTGTCTTCCTGCCCCAAACCG
Seq A exon
GTGAGGGGTCCTAATCTGATGGGGAGAGGATCAAGGTCAGATTAGAGGCAGGCAGGCAGTCTCCTGACTGGGGGAGGCAGAGGGGAGGAGGTGGCCCCGCCCTGCTCGAGGCCTGGGCCAGGGACAGAGGGGGTGAGTGTTCAAGTCAGAACCTCCCTCCCGCAGCCCCTTCATGAGGAGCCCCCTCCATGGGGGACATGGAGACCAGGCGCCCACTCTGTGCCAGGCCCCAGCAGCTCCCAGGATGTGGGGCTTCAGCCTGGTGGGGGGCATAGGGTAGAGGGTGCCCATGGGGGATACAGGGGAACCAACCATACTGGGCTCAGGCACAGCCTCCTAGGGGTGGACAGCCTGCTCTTGGCAGAGGTGGAGAAAGACCCTCTCTTTGTTTCCAGTGCCCAGGGAGAGGTGGGAGGTGATGGGGGATCTGTGCAGTTTGGGGGCTCAGTCAAGACGAGCTCTGCGTTACGGGAGGAACAGGAAGCCCAGTGGGAAAATTGGCCTAAGTCTGGGGTTCTGACGACAGCCCCTGGCTTCTTTCTTGGCAG
Seq C2 exon
ATAAGTGCATGACGGAACAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107317-PTGDS:NM_000954:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.398
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=PD(18.6=84.6)
A:
NA
C2:
PF0006118=Lipocalin=PD(0.7=11.1)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)