U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    araf A-Raf proto-oncogene, serine/threonine kinase [ Danio rerio (zebrafish) ]

    Gene ID: 403063, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    arafprovided by ZNC
    Official Full Name
    A-Raf proto-oncogene, serine/threonine kinaseprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050102-2
    See related
    Ensembl:ENSDARG00000054533 AllianceGenome:ZFIN:ZDB-GENE-050102-2
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    sb:eu994; zgc:92074; wu:fk45h07
    Summary
    Enables SMAD binding activity. Acts upstream of or within negative regulation of SMAD protein signal transduction and negative regulation of nodal signaling pathway. Predicted to be active in cytosol and mitochondrion. Is expressed in head. Human ortholog(s) of this gene implicated in high grade glioma. Orthologous to human ARAF (A-Raf proto-oncogene, serine/threonine kinase). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See araf in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (26853096..26866045)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (26252387..26269036)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene si:ch211-102c2.4 Neighboring gene IMP U3 small nucleolar ribonucleoprotein 4 Neighboring gene zgc:64051 Neighboring gene lectin, mannose-binding 2-like b

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. The Kinase Activity-deficient Isoform of the Protein Araf Antagonizes Ras/Mitogen-activated Protein Kinase (Ras/MAPK) Signaling in the Zebrafish Embryo. Xiong C, et al. J Biol Chem, 2015 Oct 16. PMID 26306042, Free PMC Article
    2. miR-103/107 regulates left-right asymmetry in zebrafish by modulating Kupffer's vesicle development and ciliogenesis. Heigwer J, et al. Biochem Biophys Res Commun, 2020 Jun 25. PMID 32334837
    3. Araf kinase antagonizes Nodal-Smad2 activity in mesendoderm development by directly phosphorylating the Smad2 linker region. Liu X, et al. Nat Commun, 2013. PMID 23591895, Free PMC Article
    4. Temporal pattern of loss/persistence of duplicate genes involved in signal transduction and metabolic pathways after teleost-specific genome duplication. Sato Y, et al. BMC Evol Biol, 2009 Jun 5. PMID 19500364, Free PMC Article
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. different isoforms of Araf may participate in similar developmental processes but by regulating different signaling pathways
      Title: The Kinase Activity-deficient Isoform of the Protein Araf Antagonizes Ras/Mitogen-activated Protein Kinase (Ras/MAPK) Signaling in the Zebrafish Embryo.
    Submit: New GeneRIF Correction

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables MAP kinase kinase kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables SMAD binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in MAPK cascade IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of SMAD protein signal transduction IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of nodal signaling pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of nodal signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    serine/threonine-protein kinase A-Raf
    Names
    serine/threonine protein kinase ARAF alt1
    serine/threonine protein kinase ARAF alt2
    serine/threonine protein kinase ARAF alt3
    serine/threonine protein kinase ARAF alt4
    serine/threonine protein kinase ARAF alt5
    serine/threonine protein kinase ARAF standard form
    v-raf murine sarcoma 3611 viral oncogene homolog
    NP_991306.1
    XP_005171874.1
    XP_005171875.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_205743.1 → NP_991306.1  serine/threonine-protein kinase A-Raf

      See identical proteins and their annotated locations for NP_991306.1

      Status: PROVISIONAL

      Source sequence(s)
      AB120005
      UniProtKB/TrEMBL
      Q75Y03
      Related
      ENSDARP00000118602.1, ENSDART00000138182.3
      Conserved Domains (4) summary
      cd01816
      Location:24 → 95
      Raf_RBD; Ubiquitin domain of Raf serine/threonine kinases
      cd00029
      Location:103 → 148
      C1; Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second ...
      cd14150
      Location:311 → 575
      STKc_A-Raf; Catalytic domain of the Serine/Threonine Kinase, A-Raf (Rapidly Accelerated Fibrosarcoma) kinase
      pfam00069
      Location:315 → 566
      Pkinase; Protein kinase domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007116.7 Reference GRCz11 Primary Assembly

      Range
      26853096..26866045
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005171817.5 → XP_005171874.1  serine/threonine-protein kinase A-Raf isoform X1

      See identical proteins and their annotated locations for XP_005171874.1

      UniProtKB/TrEMBL
      A0A8M2BJ35, Q5FBD1
      Conserved Domains (4) summary
      cd01816
      Location:24 → 95
      Raf_RBD; Ubiquitin domain of Raf serine/threonine kinases
      cd00029
      Location:103 → 148
      C1; Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second ...
      cd14150
      Location:311 → 575
      STKc_A-Raf; Catalytic domain of the Serine/Threonine Kinase, A-Raf (Rapidly Accelerated Fibrosarcoma) kinase
      pfam00069
      Location:315 → 566
      Pkinase; Protein kinase domain

    2. XM_005171818.5 → XP_005171875.1  serine/threonine-protein kinase A-Raf isoform X2

      See identical proteins and their annotated locations for XP_005171875.1

      UniProtKB/TrEMBL
      A0A8M2BJL6, Q5M7Y2
      Related
      ENSDARP00000118701.1, ENSDART00000140081.2
      Conserved Domains (4) summary
      cd01816
      Location:24 → 95
      Raf_RBD; Ubiquitin domain of Raf serine/threonine kinases
      cd00029
      Location:103 → 148
      C1; Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second ...
      cd14150
      Location:307 → 571
      STKc_A-Raf; Catalytic domain of the Serine/Threonine Kinase, A-Raf (Rapidly Accelerated Fibrosarcoma) kinase
      pfam00069
      Location:311 → 562
      Pkinase; Protein kinase domain
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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