Phyh phytanoyl-CoA 2-hydroxylase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Phyhprovided by RGD
Official Full Name: phytanoyl-CoA 2-hydroxylaseprovided by RGD
Primary source: RGD:620317
See related: EnsemblRapid:ENSRNOG00000018044 AllianceGenome:RGD:620317
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables phytanoyl-CoA dioxygenase activity. Involved in 2-oxobutyrate catabolic process and fatty acid alpha-oxidation. Located in peroxisome. Biomarker of metabolic dysfunction-associated steatotic liver disease. Human ortholog(s) of this gene implicated in Refsum disease; Zellweger syndrome; orofacial cleft; and peroxisomal disease. Orthologous to human PHYH (phytanoyl-CoA 2-hydroxylase). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 4214.8), Liver (RPKM 3175.7) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 17q12.3

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	17	NC_086035.1 (78238747..78255645, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	17	NC_051352.1 (73329461..73346359, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	17	NC_005116.4 (77287580..77304482, complement)

Chromosome 17 - NC_086035.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

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General gene information

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Markers

BE114499 (e-PCR)
- UniSTS:261412

AI256161 (e-PCR)
- UniSTS:178560

RH129871 (e-PCR)
- UniSTS:213159

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables L-ascorbic acid binding	ISO Inferred from Sequence Orthology more info
enables carboxylic acid binding	ISO Inferred from Sequence Orthology more info
enables catalytic activity	ISO Inferred from Sequence Orthology more info
enables ferrous iron binding	ISO Inferred from Sequence Orthology more info
enables phytanoyl-CoA dioxygenase activity	IBA Inferred from Biological aspect of Ancestor more info
enables phytanoyl-CoA dioxygenase activity	IDA Inferred from Direct Assay more info	PubMed
enables phytanoyl-CoA dioxygenase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in 2-oxobutyrate catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in 2-oxoglutarate metabolic process	ISO Inferred from Sequence Orthology more info
involved_in fatty acid alpha-oxidation	IBA Inferred from Biological aspect of Ancestor more info
involved_in fatty acid alpha-oxidation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within fatty acid alpha-oxidation	ISO Inferred from Sequence Orthology more info
involved_in fatty acid alpha-oxidation	ISO Inferred from Sequence Orthology more info
involved_in isoprenoid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in methyl-branched fatty acid metabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in 9+0 non-motile cilium	ISO Inferred from Sequence Orthology more info
located_in peroxisome	IDA Inferred from Direct Assay more info	PubMed
located_in peroxisome	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: phytanoyl-CoA dioxygenase, peroxisomal

Names: phytanic acid oxidase; phytanoyl-CoA alpha-hydroxylase; phytanoyl-CoA hydroxylase (Refsum disease)

NP_446126.1

EC 1.14.11.18

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.