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    Apof apolipoprotein F [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500761, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Apofprovided by RGD
    Official Full Name
    apolipoprotein Fprovided by RGD
    Primary source
    RGD:1560713
    See related
    EnsemblRapid:ENSRNOG00000062320 AllianceGenome:RGD:1560713
    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 be involved in cholesterol metabolic process. Predicted to act upstream of or within cholesterol efflux and triglyceride metabolic process. Predicted to be part of high-density lipoprotein particle and low-density lipoprotein particle. Predicted to be active in extracellular space. Orthologous to human APOF (apolipoprotein F). [provided by Alliance of Genome Resources, Dec 2024]
    Annotation information
    Note: Genetic polymorphisms result in both protein coding and non-coding alleles of this gene.
    Expression
    Restricted expression toward (RPKM 2086.3) See more
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    Genomic context

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    See Apof in Genome Data Viewer
    Location:
    7q11
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (1285222..1286659)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (700688..702130)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (2689501..2690938)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene timeless circadian regulator Neighboring gene U6 spliceosomal RNA Neighboring gene apolipoprotein N Neighboring gene signal transducer and activator of transcription 2 Neighboring gene interleukin 23 subunit alpha

    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. Absolute quantitation of disease protein biomarkers in a single LC-MS acquisition using apolipoprotein F as an example. Kumar A, et al. Sci Rep, 2017 Sep 21. PMID 28935895, Free PMC Article
    2. The effects of apolipoprotein F deficiency on high density lipoprotein cholesterol metabolism in mice. Lagor WR, et al. PLoS One, 2012. PMID 22363685, Free PMC Article
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    4. 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
    5. 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

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within cholesterol efflux ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cholesterol metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cholesterol metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within triglyceride metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular space ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of high-density lipoprotein particle IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of low-density lipoprotein particle IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    apolipoprotein F
    Names
    apo-F
    liver regeneration-related protein LRRG151

    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_001409538.1 → NP_001396467.1  apolipoprotein F precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) is the protein coding allele of rat strain SHR/Utx.
      Source sequence(s)
      CM042121
      UniProtKB/Swiss-Prot
      Q5M889, Q7TP25
      UniProtKB/TrEMBL
      A6KSB4
      Related
      ENSRNOP00000102095.1, ENSRNOT00000128895.1

    RNA

    1. NR_176857.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This is the non-coding allele of rat strain BN/NHsdMcwi.
      Source sequence(s)
      BC088170

    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_086025.1 Reference GRCr8

      Range
      1285222..1286659
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001024351.1: Suppressed sequence

      Description
      NM_001024351.1: This RefSeq was removed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5M889.1 GenPept UniProtKB/Swiss-Prot:Q5M889

    Gene LinkOut

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

    Other Literature Sources
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