HsaALTD0004740-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000175287 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr9:128937757-128940497:+
Coord C1 exon
chr9:128937757-128937778
Coord A exon
chr9:128937779-128937944
Coord C2 exon
chr9:128940369-128940497
Length
166 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGG
5' ss Score
4.44
3' ss Seq
CCCCCCGTGGGCCTGCTTAGTCT
3' ss Score
3.41
Exon sequences
Seq C1 exon
CAACCTCACTTTGGCGGTGAAG
Seq A exon
GTGAGCTGAGAGCTGTGGGCCCCTGAAAAGGCCATGGGTGGGACATCTAAGACAGCAATGGTTCTCAGATCTTCAGAAGGAGGGAAAGCGCTTGCTCCTGTCTGTTGTAGGAGCCTGGCCCGGAGAGGAGGAGCCACCTTCCATTCCTTCCCCTGATAGTGGATTG
Seq C2 exon
TCTCCCCTCATCAGGACGCCTCCTTCCTGTACACGGAGCCCCTGGGCCGGGTGCTGGGCGTGTGGATCGCAGTGGAGGATGCCACGCTGGAGAACGGCTGTCTCTGGTTCATCCCTGGCTCCCACACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175287-25-36,26-36-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.140 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(3.1=100)
A:
NA
C2:
PF057218=PhyH=PD(13.3=18.6)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCTCACTTTGGCGGTGAAG
R:
TGTGGGAGCCAGGGATGAAC
Band lengths:
147-313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development