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

    Gene ID: 296621, updated on 13-Jul-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, Apr 2022]
    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
    • 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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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