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    Rapgef3 Rap guanine nucleotide exchange factor 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 59326, updated on 9-Dec-2024

    Summary

    Official Symbol
    Rapgef3provided by RGD
    Official Full Name
    Rap guanine nucleotide exchange factor 3provided by RGD
    Primary source
    RGD:621869
    See related
    EnsemblRapid:ENSRNOG00000059961 AllianceGenome:RGD:621869
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Epac
    Summary
    Enables cAMP binding activity and transmembrane transporter binding activity. Involved in several processes, including nervous system development; positive regulation of cation transmembrane transport; and positive regulation of macromolecule metabolic process. Located in several cellular components, including basolateral part of cell; brush border membrane; and distal axon. Orthologous to human RAPGEF3 (Rap guanine nucleotide exchange factor 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 146.5), Adrenal (RPKM 124.4) and 8 other tissues See more
    Orthologs
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    Genomic context

    See Rapgef3 in Genome Data Viewer
    Location:
    7q36
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (130754883..130777303, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (128875772..128898203, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (139232263..139254668, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene RNA polymerase II associated protein 3 Neighboring gene endonuclease, poly(U)-specific Neighboring gene uncharacterized LOC134479568 Neighboring gene uncharacterized LOC102548155 Neighboring gene solute carrier family 48 member 1 Neighboring gene histone deacetylase 7 Neighboring gene uncharacterized LOC108351548

    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?

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • MGC124613

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cAMP binding PubMed 
    enables guanyl-nucleotide exchange factor activity  
    enables guanyl-nucleotide exchange factor activity  
    enables guanyl-nucleotide exchange factor activity  
    enables guanyl-nucleotide exchange factor activity  
    enables protein binding PubMed 
    enables protein domain specific binding  
    enables protein domain specific binding  
    enables transmembrane transporter binding PubMed 
    Items 1 - 25 of 52
    Process Evidence Code Pubs
    involved_in Rap protein signal transduction  
    involved_in Rap protein signal transduction  
    involved_in Rap protein signal transduction  
    involved_in Ras protein signal transduction  
    involved_in angiogenesis  
    involved_in artery development PubMed 
    involved_in associative learning  
    involved_in associative learning  
    involved_in cellular response to L-dopa PubMed 
    involved_in cellular response to cAMP  
    involved_in cellular response to cAMP  
    involved_in cellular response to cAMP  
    involved_in cellular response to organic cyclic compound PubMed 
    involved_in cellular response to transforming growth factor beta stimulus PubMed 
    involved_in cellular response to xenobiotic stimulus PubMed 
    involved_in dorsal root ganglion development PubMed 
    involved_in establishment of endothelial barrier  
    involved_in establishment of endothelial barrier  
    involved_in establishment of endothelial barrier  
    involved_in intracellular signal transduction  
    involved_in liver regeneration PubMed 
    involved_in negative regulation of cardiac muscle cell apoptotic process PubMed 
    involved_in negative regulation of collagen biosynthetic process PubMed 
    involved_in negative regulation of syncytium formation by plasma membrane fusion  
    involved_in negative regulation of syncytium formation by plasma membrane fusion  
    involved_in positive regulation of GTPase activity  
    involved_in positive regulation of GTPase activity  
    involved_in positive regulation of angiogenesis  
    involved_in positive regulation of angiogenesis  
    involved_in positive regulation of angiogenesis  
    involved_in positive regulation of calcium ion transmembrane transport PubMed 
    involved_in positive regulation of cell size PubMed 
    involved_in positive regulation of potassium ion import across plasma membrane PubMed 
    involved_in positive regulation of protein export from nucleus  
    involved_in positive regulation of protein export from nucleus  
    involved_in positive regulation of protein phosphorylation PubMed 
    involved_in positive regulation of smooth muscle cell migration PubMed 
    involved_in positive regulation of stress fiber assembly  
    involved_in positive regulation of stress fiber assembly  
    involved_in positive regulation of stress fiber assembly  
    involved_in positive regulation of syncytium formation by plasma membrane fusion  
    involved_in positive regulation of syncytium formation by plasma membrane fusion  
    involved_in positive regulation of transcription by RNA polymerase II PubMed 
    involved_in regulation of actin cytoskeleton organization PubMed 
    involved_in regulation of actin cytoskeleton organization  
    involved_in regulation of actin cytoskeleton organization  
    involved_in regulation of angiogenesis  
    involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  
    involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  
    involved_in response to nicotine PubMed 
    involved_in small GTPase-mediated signal transduction  
    involved_in spinal cord development PubMed 
    Items 1 - 25 of 52
    Items 1 - 20 of 27
    Component Evidence Code Pubs
    located_in apical part of cell PubMed 
    located_in axon terminus PubMed 
    located_in basal plasma membrane PubMed 
    located_in basolateral part of cell PubMed 
    located_in brush border membrane PubMed 
    located_in cortical actin cytoskeleton PubMed 
    located_in cortical actin cytoskeleton  
    located_in cortical actin cytoskeleton  
    located_in filopodium PubMed 
    located_in filopodium  
    located_in filopodium  
    located_in growth cone PubMed 
    located_in lamellipodium PubMed 
    located_in lamellipodium  
    located_in lamellipodium  
    located_in microvillus PubMed 
    located_in microvillus  
    located_in microvillus  
    located_in neuronal cell body PubMed 
    located_in perinuclear region of cytoplasm PubMed 
    located_in photoreceptor cell terminal bouton PubMed 
    is_active_in plasma membrane  
    located_in plasma membrane PubMed 
    located_in plasma membrane  
    located_in plasma membrane  
    located_in ribbon synapse PubMed 
    located_in rod bipolar cell terminal bouton PubMed 
    Items 1 - 20 of 27

    General protein information

    Preferred Names
    rap guanine nucleotide exchange factor 3
    Names
    Rap guanine nucleotide exchange factor (GEF) 3
    cAMP-GEFI
    cAMP-regulated guanine nucleotide exchange factor I (cAMP-GEFI)
    epac 1
    exchange factor directly activated by cAMP 1
    exchange protein directly activated by cAMP 1

    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_021690.2NP_067722.2  rap guanine nucleotide exchange factor 3

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A0G2K3G8, Q3B7C8
      Related
      ENSRNOP00000076511.1, ENSRNOT00000096691.2
      Conserved Domains (4) summary
      smart00147
      Location:619884
      RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
      cd00038
      Location:205314
      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:58181
      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:345454
      RasGEF_N; RasGEF N-terminal motif

    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
      130754883..130777303 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063264182.1XP_063120252.1  rap guanine nucleotide exchange factor 3 isoform X3

      UniProtKB/Swiss-Prot
      Q9Z1C8
      Related
      ENSRNOP00000072633.3, ENSRNOT00000078644.3
    2. XM_039079829.2XP_038935757.1  rap guanine nucleotide exchange factor 3 isoform X2

      UniProtKB/Swiss-Prot
      Q9Z1C8
      Conserved Domains (4) summary
      smart00147
      Location:707972
      RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
      cd00038
      Location:247356
      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:100223
      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:387496
      RasGEF_N; RasGEF N-terminal motif
    3. XM_039079828.2XP_038935756.1  rap guanine nucleotide exchange factor 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y034
      Conserved Domains (4) summary
      smart00147
      Location:7381003
      RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
      cd00038
      Location:278387
      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:131254
      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:418527
      RasGEF_N; RasGEF N-terminal motif
    4. XM_039079830.2XP_038935758.1  rap guanine nucleotide exchange factor 3 isoform X4

      UniProtKB/TrEMBL
      A0A0G2K3G8
      Conserved Domains (4) summary
      smart00147
      Location:641906
      RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
      cd00038
      Location:181290
      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:34157
      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:321430
      RasGEF_N; RasGEF N-terminal motif
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