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    Agap3 ArfGAP with GTPase domain, ankyrin repeat and PH domain 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362300, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Agap3provided by RGD
    Official Full Name
    ArfGAP with GTPase domain, ankyrin repeat and PH domain 3provided by RGD
    Primary source
    RGD:1310751
    See related
    EnsemblRapid:ENSRNOG00000012764 AllianceGenome:RGD:1310751
    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
    Also known as
    Centg3
    Summary
    Predicted to enable GTPase activator activity; GTPase activity; and polyubiquitin modification-dependent protein binding activity. Involved in regulation of postsynaptic membrane neurotransmitter receptor levels. Is active in glutamatergic synapse and postsynaptic density. Orthologous to human AGAP3 (ArfGAP with GTPase domain, ankyrin repeat and PH domain 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 71.5), Lung (RPKM 55.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Agap3 in Genome Data Viewer
    Location:
    4q11
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (11567191..11617610, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (10674746..10724848, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (7202330..7253386, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene ankyrin repeat and SOCS box-containing 10 Neighboring gene gastrulation brain homeobox 1 Neighboring gene uncharacterized LOC134486542 Neighboring gene transmembrane and ubiquitin-like domain containing 1 Neighboring gene Fas-activated serine/threonine kinase

    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 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. Novelty-induced memory consolidation is accompanied by increased Agap3 transcription: a cross-species study. Højgaard K, et al. Mol Brain, 2023 Sep 25. PMID 37749596, Free PMC Article
    2. AGAP3 and Arf6 regulate trafficking of AMPA receptors and synaptic plasticity. Oku Y, et al. J Neurosci, 2013 Jul 31. PMID 23904596, Free PMC Article
    3. A novel GTPase, CRAG, mediates promyelocytic leukemia protein-associated nuclear body formation and degradation of expanded polyglutamine protein. Qin Q, et al. J Cell Biol, 2006 Feb 13. PMID 16461359, 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

    What's a GeneRIF?
    1. Novelty-induced memory consolidation is accompanied by increased Agap3 transcription: a cross-species study.
      Title: Novelty-induced memory consolidation is accompanied by increased Agap3 transcription: a cross-species study.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables GTP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables GTPase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables GTPase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables polyubiquitin modification-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cellular response to reactive oxygen species ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein import into nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of postsynaptic membrane neurotransmitter receptor levels IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of postsynaptic membrane neurotransmitter receptor levels IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cell periphery ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in neuron projection IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic density IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3
    Names
    centaurin, gamma 3

    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_001398853.1 → NP_001385782.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      Related
      ENSRNOP00000070947.3, ENSRNOT00000087120.3
      Conserved Domains (5) summary
      cd04103
      Location:127 → 284
      Centaurin_gamma; Centaurin gamma (CENTG) GTPase
      cd01250
      Location:400 → 542
      PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain
      sd00045
      Location:686 → 716
      ANK; ANK repeat [structural motif]
      cd08855
      Location:558 → 667
      ArfGap_AGAP3; ArfGAP with GTPase domain, ANK repeat and PH domain 3
      pfam12796
      Location:686 → 776
      Ank_2; Ankyrin repeats (3 copies)

    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_086022.1 Reference GRCr8

      Range
      11567191..11617610 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006235941.5 → XP_006236003.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X4

      UniProtKB/TrEMBL
      A0A0G2K2D4, U6A022
      Related
      ENSRNOP00000072199.2, ENSRNOT00000084777.3
      Conserved Domains (8) summary
      cd04103
      Location:127 → 284
      Centaurin_gamma; Centaurin gamma (CENTG) GTPase
      smart00010
      Location:125 → 290
      small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily
      cd00204
      Location:787 → 876
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      cd01250
      Location:400 → 643
      PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain
      pfam00169
      Location:403 → 464
      PH; PH domain
      pfam01412
      Location:671 → 776
      ArfGap; Putative GTPase activating protein for Arf
      pfam12796
      Location:787 → 877
      Ank_2; Ankyrin repeats (3 copies)
      sd00045
      Location:787 → 817
      ANK; ANK repeat [structural motif]

    2. XM_008762650.4 → XP_008760872.2  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X12

      UniProtKB/TrEMBL
      U6A022

    3. XM_006235938.5 → XP_006236000.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X1

      Conserved Domains (8) summary
      cd04103
      Location:311 → 468
      Centaurin_gamma; Centaurin gamma (CENTG) GTPase
      smart00010
      Location:309 → 474
      small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily
      cd00204
      Location:971 → 1060
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      cd01250
      Location:584 → 827
      PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain
      pfam00169
      Location:587 → 648
      PH; PH domain
      pfam01412
      Location:855 → 960
      ArfGap; Putative GTPase activating protein for Arf
      pfam12796
      Location:971 → 1061
      Ank_2; Ankyrin repeats (3 copies)
      sd00045
      Location:971 → 1001
      ANK; ANK repeat [structural motif]

    4. XM_006235940.5 → XP_006236002.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A8I5Y9H3
      Conserved Domains (8) summary
      cd04103
      Location:311 → 468
      Centaurin_gamma; Centaurin gamma (CENTG) GTPase
      smart00010
      Location:309 → 474
      small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily
      cd00204
      Location:870 → 959
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      cd01250
      Location:584 → 726
      PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain
      pfam00169
      Location:587 → 721
      PH; PH domain
      pfam01412
      Location:754 → 859
      ArfGap; Putative GTPase activating protein for Arf
      pfam12796
      Location:870 → 960
      Ank_2; Ankyrin repeats (3 copies)
      sd00045
      Location:870 → 900
      ANK; ANK repeat [structural motif]

    5. XM_006235939.5 → XP_006236001.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X2

      Conserved Domains (8) summary
      cd04103
      Location:311 → 468
      Centaurin_gamma; Centaurin gamma (CENTG) GTPase
      smart00010
      Location:309 → 474
      small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily
      cd00204
      Location:925 → 1014
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      cd01250
      Location:584 → 781
      PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain
      pfam00169
      Location:587 → 648
      PH; PH domain
      pfam01412
      Location:809 → 914
      ArfGap; Putative GTPase activating protein for Arf
      pfam12796
      Location:925 → 1015
      Ank_2; Ankyrin repeats (3 copies)
      sd00045
      Location:925 → 955
      ANK; ANK repeat [structural motif]

    6. XM_039107750.2 → XP_038963678.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X10

      UniProtKB/TrEMBL
      A6K545
      Conserved Domains (4) summary
      cd01250
      Location:55 → 197
      PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain
      sd00045
      Location:341 → 371
      ANK; ANK repeat [structural motif]
      cd08855
      Location:213 → 322
      ArfGap_AGAP3; ArfGAP with GTPase domain, ANK repeat and PH domain 3
      pfam12796
      Location:341 → 431
      Ank_2; Ankyrin repeats (3 copies)

    7. XM_039107748.2 → XP_038963676.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X8

      UniProtKB/TrEMBL
      A6K545
      Conserved Domains (5) summary
      PHA03247
      Location:122 → 252
      PHA03247; large tegument protein UL36; Provisional
      cd01250
      Location:55 → 298
      PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain
      sd00045
      Location:442 → 472
      ANK; ANK repeat [structural motif]
      cl28907
      Location:314 → 423
      ArfGap; GTPase-activating protein (GAP) for the ADP ribosylation factors (ARFs)
      pfam12796
      Location:442 → 532
      Ank_2; Ankyrin repeats (3 copies)

    8. XM_039107749.2 → XP_038963677.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X9

      UniProtKB/TrEMBL
      A6K545
      Conserved Domains (4) summary
      sd00045
      Location:344 → 374
      ANK; ANK repeat [structural motif]
      cl28907
      Location:216 → 325
      ArfGap; GTPase-activating protein (GAP) for the ADP ribosylation factors (ARFs)
      pfam12796
      Location:344 → 434
      Ank_2; Ankyrin repeats (3 copies)
      cl17171
      Location:1 → 200
      PH-like; Pleckstrin homology-like domain

    9. XM_063286226.1 → XP_063142296.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X5

    10. XM_006235943.5 → XP_006236005.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X11

      UniProtKB/TrEMBL
      A0A0G2JZ83
      Related
      ENSRNOP00000100965.1, ENSRNOT00000171340.1
      Conserved Domains (2) summary
      cd04103
      Location:127 → 284
      Centaurin_gamma; Centaurin gamma (CENTG) GTPase
      smart00010
      Location:125 → 290
      small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily

    11. XM_017592682.3 → XP_017448171.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X7

      UniProtKB/TrEMBL
      G3V9Z5
      Related
      ENSRNOP00000063846.2, ENSRNOT00000064386.4

    12. XM_063286227.1 → XP_063142297.1  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X6

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001108616.1: Suppressed sequence

      Description
      NM_001108616.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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