HsaINT0124463 @ hg19
Intron Retention
Gene
ENSG00000175287 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:23396]
Coordinates
chr9:131698727-131698924:+
Coord C1 exon
chr9:131698727-131698782
Coord A exon
chr9:131698783-131698861
Coord C2 exon
chr9:131698862-131698924
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGACCTTTGCCCCCCTCCAGACC
3' ss Score
10.09
Exon sequences
Seq C1 exon
CTCTGCACGCCCACGACCCCGTCTTCAAGAGCATCACACACTCCTTCAAGGTGCAG
Seq A exon
GTGAGCAGAGGTGGGGGTGAGGGCCAGGAGGGTGGGCCATGTGTGGCAGGCTGGCAGCATGACCTTTGCCCCCCTCCAG
Seq C2 exon
ACCTTGGCCAGAAGTCTGGGCCTCCAGATGCCCGTGGTGGTGCAGAGCATGTACATCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175287-PHYHD1:NM_174933:7
Average complexity
IR-C
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:
PF057218=PhyH=FE(12.7=100)
A:
NA
C2:
PF057218=PhyH=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:
CGACCCCGTCTTCAAGAGCAT
R:
AAAGATGTACATGCTCTGCACCA
Band lengths:
103-182
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)