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Phyhd1 phytanoyl-CoA dioxygenase domain containing 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 296621, updated on 2-Nov-2024

Summary

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Official Symbol
Phyhd1provided by RGD
Official Full Name
phytanoyl-CoA dioxygenase domain containing 1provided by RGD
Primary source
RGD:1310377
See related
EnsemblRapid:ENSRNOG00000016794 AllianceGenome:RGD:1310377
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
Predicted to enable 2-oxoglutarate-dependent dioxygenase activity. Orthologous to human PHYHD1 (phytanoyl-CoA dioxygenase domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Kidney (RPKM 360.5), Liver (RPKM 207.0) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Phyhd1 in Genome Data Viewer
Location:
3p12
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (33933487..33951614)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (13535670..13553797)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (8828052..8846126)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene kynurenine aminotransferase 1 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene leucine rich repeat containing 8 VRAC subunit A Neighboring gene uncharacterized LOC120101891 Neighboring gene nucleoporin 188 Neighboring gene dolichol kinase

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Clone Names

  • MGC109475

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables 2-oxoglutarate-dependent dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables 2-oxoglutarate-dependent dioxygenase activity ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
phytanoyl-CoA dioxygenase domain-containing protein 1
NP_001013099.1
XP_006233839.1
XP_006233841.1
XP_017447138.1

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.

mRNA and Protein(s)

  1. NM_001013081.1 → NP_001013099.1  phytanoyl-CoA dioxygenase domain-containing protein 1

    See identical proteins and their annotated locations for NP_001013099.1

    Status: PROVISIONAL

    Source sequence(s)
    BC091389
    UniProtKB/Swiss-Prot
    Q5BJP9
    UniProtKB/TrEMBL
    A0A8I6AEE4, A6JTW5
    Related
    ENSRNOP00000090750.2, ENSRNOT00000112840.2
    Conserved Domains (1) summary
    pfam05721
    Location:12 → 259
    PhyH; Phytanoyl-CoA dioxygenase (PhyH)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086021.1 Reference GRCr8

    Range
    33933487..33951614
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017591649.2 → XP_017447138.1  phytanoyl-CoA dioxygenase domain-containing protein 1 isoform X2

    UniProtKB/Swiss-Prot
    Q5BJP9
    UniProtKB/TrEMBL
    A0A8I6AEE4, A6JTW5
    Conserved Domains (1) summary
    pfam05721
    Location:12 → 259
    PhyH; Phytanoyl-CoA dioxygenase (PhyH)

  2. XM_006233777.5 → XP_006233839.1  phytanoyl-CoA dioxygenase domain-containing protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QBX0
    Conserved Domains (1) summary
    pfam05721
    Location:83 → 330
    PhyH; Phytanoyl-CoA dioxygenase (PhyH)

  3. XM_006233779.4 → XP_006233841.1  phytanoyl-CoA dioxygenase domain-containing protein 1 isoform X2

    See identical proteins and their annotated locations for XP_006233841.1

    UniProtKB/Swiss-Prot
    Q5BJP9
    UniProtKB/TrEMBL
    A0A8I6AEE4, A6JTW5
    Related
    ENSRNOP00000022552.7, ENSRNOT00000022552.9
    Conserved Domains (1) summary
    pfam05721
    Location:12 → 259
    PhyH; Phytanoyl-CoA dioxygenase (PhyH)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5BJP9.1 GenPept UniProtKB/Swiss-Prot:Q5BJP9

Gene LinkOut

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