HsaINT0122728 @ hg19
Intron Retention
Gene
ENSG00000148459 | PDSS1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:HGNC Symbol;Acc:17759]
Coordinates
chr10:27024169-27024508:+
Coord C1 exon
chr10:27024169-27024249
Coord A exon
chr10:27024250-27024394
Coord C2 exon
chr10:27024395-27024508
Length
145 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
CCCATTTTTCCTTTTGCCAGCTA
3' ss Score
7.27
Exon sequences
Seq C1 exon
GTCTCTGTTCTAGGATGTCCCGACCCAGTGGTGCATGAGATCGCCTATCAGTACGGAAAAAATGTAGGAATAGCTTTTCAG
Seq A exon
GTTAGTATGCTTTTTATTTGTAAGAATGGTGGCGTAGTGATACAGTCAGCATTCTCCCCTAGTGTGTAATCGTCAAAATAGTAAGAACGATGGCAGCAGTGTTGGCATGGCGGTGCTCCTTACATCCCATTTTTCCTTTTGCCAG
Seq C2 exon
CTAATAGATGATGTATTGGACTTCACCTCGTGTTCTGACCAGATGGGCAAACCAACATCAGCTGATCTGAAGCTCGGGTTAGCCACTGGTCCTGTCCTGTTTGCCTGTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148459-PDSS1:NM_014317:9
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:
PF0034812=polyprenyl_synt=FE(17.8=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(14.1=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:
TCTCTGTTCTAGGATGTCCCGAC
R:
CTGCTGACAGGCAAACAGGAC
Band lengths:
194-339
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)