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    Cyp39a1 cytochrome P450, family 39, subfamily a, polypeptide 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301264, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Cyp39a1provided by RGD
    Official Full Name
    cytochrome P450, family 39, subfamily a, polypeptide 1provided by RGD
    Primary source
    RGD:1307471
    See related
    EnsemblRapid:ENSRNOG00000010519 AllianceGenome:RGD:1307471
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable oxysterol 7-alpha-hydroxylase activity. Predicted to be involved in bile acid biosynthetic process and cholesterol homeostasis. Predicted to act upstream of or within cholesterol catabolic process. Predicted to be located in endoplasmic reticulum membrane. Orthologous to human CYP39A1 (cytochrome P450 family 39 subfamily A member 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 448.0) and Kidney (RPKM 23.6) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cyp39a1 in Genome Data Viewer
    Location:
    9q13
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (24727817..24804060, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (17230455..17306775, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (19804079..19880346, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene ectonucleotide pyrophosphatase/phosphodiesterase family member 5 Neighboring gene regulator of calcineurin 2 Neighboring gene uncharacterized LOC120094639 Neighboring gene solute carrier family 25, member 27 Neighboring gene tudor domain containing 6

    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. Expression cloning of an oxysterol 7alpha-hydroxylase selective for 24-hydroxycholesterol. Li-Hawkins J, et al. J Biol Chem, 2000 Jun 2. PMID 10748047
    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

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables heme binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables iron ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxysterol 7-alpha-hydroxylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables oxysterol 7-alpha-hydroxylase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables steroid 7-alpha-hydroxylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables steroid 7-alpha-hydroxylase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in bile acid biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in bile acid biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within cholesterol catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cholesterol homeostasis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    24-hydroxycholesterol 7-alpha-hydroxylase
    XP_063122932.1
    XP_063122933.1
    XP_063122934.1
    XP_063122935.1
    XP_063122936.1
    XP_063122937.1
    XP_063122938.1

    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_001432633.1 → NP_001419562.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A6JJ27

    2. NM_001432635.1 → NP_001419564.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A6JJ27

    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_086027.1 Reference GRCr8

      Range
      24727817..24804060 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063266863.1 → XP_063122933.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform X2

    2. XM_063266864.1 → XP_063122934.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform X3

      UniProtKB/TrEMBL
      A6JJ27

    3. XM_063266865.1 → XP_063122935.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform X4

      Related
      ENSRNOP00000014051.5, ENSRNOT00000014051.5

    4. XM_063266868.1 → XP_063122938.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform X6

    5. XM_063266866.1 → XP_063122936.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform X5

      UniProtKB/TrEMBL
      D4AE09
      Related
      ENSRNOP00000101149.1, ENSRNOT00000152381.1

    6. XM_063266862.1 → XP_063122932.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform X1

      UniProtKB/TrEMBL
      A6JJ27

    7. XM_063266867.1 → XP_063122937.1  24-hydroxycholesterol 7-alpha-hydroxylase isoform X5

      UniProtKB/TrEMBL
      D4AE09

    RNA

    1. XR_010054579.1 RNA Sequence

    2. XR_010054580.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001106893.1: Suppressed sequence

      Description
      NM_001106893.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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