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    Gapvd1 GTPase activating protein and VPS9 domains 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311880, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Gapvd1provided by RGD
    Official Full Name
    GTPase activating protein and VPS9 domains 1provided by RGD
    Primary source
    RGD:1307479
    See related
    Ensembl:ENSRNOG00000017925 AllianceGenome:RGD:1307479
    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
    RGD1307479
    Summary
    Predicted to enable GTPase activating protein binding activity and guanyl-nucleotide exchange factor activity. Predicted to be involved in regulation of protein transport. Predicted to be located in cytosol and plasma membrane. Orthologous to human GAPVD1 (GTPase activating protein and VPS9 domains 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 161.9), Adrenal (RPKM 131.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Gapvd1 in Genome Data Viewer
    Location:
    3p11
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (38365854..38439403, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (17968345..18041888, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (13751572..13825573, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108350353 Neighboring gene MAPK associated protein 1 Neighboring gene ribosomal protein S7, pseudogene 1 Neighboring gene heat shock protein family A (Hsp70) member 5 Neighboring gene Rab9 effector protein with kelch motifs

    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
    • 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. Rab5-activating protein 6, a novel endosomal protein with a role in endocytosis. Hunker CM, et al. Biochem Biophys Res Commun, 2006 Feb 17. PMID 16410077
    2. Gapex-5, a Rab31 guanine nucleotide exchange factor that regulates Glut4 trafficking in adipocytes. Lodhi IJ, et al. Cell Metab, 2007 Jan. PMID 17189207, Free PMC Article
    3. E-cadherin interactome complexity and robustness resolved by quantitative proteomics. Guo Z, et al. Sci Signal, 2014 Dec 2. PMID 25468996, Free PMC Article
    4. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables GTPase activating protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables guanyl-nucleotide exchange factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables guanyl-nucleotide exchange factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables small GTPase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in endocytosis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of protein transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endocytic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    GTPase-activating protein and VPS9 domain-containing protein 1

    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_001427683.1 → NP_001414612.1  GTPase-activating protein and VPS9 domain-containing protein 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A0A8I5Y674

    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_086021.1 Reference GRCr8

      Range
      38365854..38439403 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063283969.1 → XP_063140039.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X6

    2. XM_008761795.4 → XP_008760017.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X4

      See identical proteins and their annotated locations for XP_008760017.1

      UniProtKB/TrEMBL
      A6JUC5, D4A022
      Related
      ENSRNOP00000063504.4
      Conserved Domains (2) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6
      pfam02204
      Location:1332 → 1433
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    3. XM_063283968.1 → XP_063140038.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X5

    4. XM_008761792.4 → XP_008760014.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X2

      See identical proteins and their annotated locations for XP_008760014.1

      UniProtKB/TrEMBL
      A6JUC5
      Conserved Domains (2) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6
      pfam02204
      Location:1359 → 1460
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    5. XM_008761794.4 → XP_008760016.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X3

      See identical proteins and their annotated locations for XP_008760016.1

      UniProtKB/TrEMBL
      A6JUC5
      Conserved Domains (2) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6
      pfam02204
      Location:1353 → 1454
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    6. XM_006234027.5 → XP_006234089.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006234089.1

      UniProtKB/TrEMBL
      A0A8I5ZT12, A6JUC5
      Related
      ENSRNOP00000082105.1
      Conserved Domains (2) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6
      pfam02204
      Location:1380 → 1481
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    7. XM_039106216.2 → XP_038962144.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X7

      Conserved Domains (1) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6

    RNA

    1. XR_010064646.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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