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    Afp alpha-fetoprotein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24177, updated on 9-Dec-2024

    Summary

    Official Symbol
    Afpprovided by RGD
    Official Full Name
    alpha-fetoproteinprovided by RGD
    Primary source
    RGD:2065
    See related
    EnsemblRapid:ENSRNOG00000002889 AllianceGenome:RGD:2065
    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 metal ion binding activity. Involved in several processes, including liver regeneration; response to dexamethasone; and response to tetrachloromethane. Located in extracellular space. Biomarker of hepatitis and hepatocellular carcinoma. Human ortholog(s) of this gene implicated in hepatitis C. Orthologous to human AFP (alpha fetoprotein). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 7579.0) See more
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    Genomic context

    See Afp in Genome Data Viewer
    Location:
    14p22
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (17857584..17875645, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (17573412..17591476, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (19141755..19159919, complement)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134481727 Neighboring gene afamin Neighboring gene uncharacterized LOC134481728 Neighboring gene albumin Neighboring gene ribosomal protein L8, pseudogene 4

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in animal organ regeneration IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to retinoic acid IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in homeostasis of number of cells IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within homeostasis of number of cells ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in immune response IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within immune response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in liver development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in liver regeneration IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in ovulation from ovarian follicle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within ovulation from ovarian follicle ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in pancreas development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in progesterone metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within progesterone metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to dexamethasone IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in response to tetrachloromethane IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    acts_upstream_of_or_within sexual reproduction ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    alpha-fetoprotein
    Names
    alpha-1-fetoprotein
    alpha-fetoglobulin
    chloride intracellular channel 6

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_012493.2NP_036625.2  alpha-fetoprotein precursor

      See identical proteins and their annotated locations for NP_036625.2

      Status: VALIDATED

      Source sequence(s)
      AW141770, DY309525, DY310963, DY317147
      UniProtKB/TrEMBL
      A6KKF8, G3V6D0, Q4QR90
      Related
      ENSRNOP00000003879.2, ENSRNOT00000003879.5
      Conserved Domains (1) summary
      smart00103
      Location:406596
      ALBUMIN; serum albumin

    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_086032.1 Reference GRCr8

      Range
      17857584..17875645 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039091614.2XP_038947542.1  alpha-fetoprotein isoform X1

      UniProtKB/TrEMBL
      A6KKF9
      Conserved Domains (2) summary
      smart00103
      Location:120310
      ALBUMIN; serum albumin
      cl00031
      Location:1112
      ALBUMIN; Albumin domain, contains five or six internal disulphide bonds; albuminoid superfamily includes alpha-fetoprotein which binds various cations, fatty acids and bilirubin; vitamin D-binding protein which binds to vitamin D, its metabolites, and fatty acids; ...