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    rapgef4a Rap guanine nucleotide exchange factor 4a [ Danio rerio (zebrafish) ]

    Gene ID: 559170, updated on 11-Apr-2024

    Summary

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    Official Symbol
    rapgef4aprovided by ZNC
    Official Full Name
    Rap guanine nucleotide exchange factor 4aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-070912-385
    See related
    Ensembl:ENSDARG00000079872 AllianceGenome:ZFIN:ZDB-GENE-070912-385
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    rapgef4; si:dkey-15i8.2
    Summary
    Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to act upstream of or within small GTPase mediated signal transduction. Human ortholog(s) of this gene implicated in autistic disorder. Orthologous to human RAPGEF4 (Rap guanine nucleotide exchange factor 4). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    chromosome: 9
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (2947975..3034142, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (2943349..3004825, complement)

    Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene cell division cycle associated 7a Neighboring gene mitogen-activated protein kinase kinase kinase 20a Neighboring gene si:ch211-173m16.2 Neighboring gene protein phosphatase 1 regulatory subunit 9A-like A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Age-related islet inflammation marks the proliferative decline of pancreatic beta-cells in zebrafish. Janjuha S, et al. Elife, 2018 Apr 6. PMID 29624168, Free PMC Article
    2. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
    3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables guanyl-nucleotide exchange factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in Ras protein signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within intracellular signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within small GTPase-mediated signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    rap guanine nucleotide exchange factor 4
    Names
    Rap guanine nucleotide exchange factor (GEF) 4

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007120.7 Reference GRCz11 Primary Assembly

      Range
      2947975..3034142 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021478818.1 → XP_021334493.1  rap guanine nucleotide exchange factor 4 isoform X1

      UniProtKB/TrEMBL
      A0A8M9Q4T0
      Related
      ENSDARP00000102838.4, ENSDART00000115138.4
      Conserved Domains (4) summary
      smart00147
      Location:781 → 1023
      RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
      cd00038
      Location:49 → 158
      CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
      cd04437
      Location:226 → 354
      DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...
      pfam00618
      Location:513 → 618
      RasGEF_N; RasGEF N-terminal motif

    2. XM_009304430.3 → XP_009302705.1  rap guanine nucleotide exchange factor 4 isoform X2

      UniProtKB/TrEMBL
      A0A8M3AVP1
      Conserved Domains (5) summary
      smart00147
      Location:622 → 864
      RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
      COG0664
      Location:238 → 319
      Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
      cd00038
      Location:217 → 328
      CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
      cd04437
      Location:67 → 195
      DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...
      pfam00618
      Location:354 → 459
      RasGEF_N; RasGEF N-terminal motif
    Nucleotide Protein Strain
    Heading Accession and Version

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