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    gapvd1 GTPase activating protein and VPS9 domains 1 [ Danio rerio (zebrafish) ]

    Gene ID: 436693, updated on 2-Nov-2024

    Summary

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    Official Symbol
    gapvd1provided by ZNC
    Official Full Name
    GTPase activating protein and VPS9 domains 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040718-117
    See related
    Ensembl:ENSDARG00000090183 AllianceGenome:ZFIN:ZDB-GENE-040718-117
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:92666
    Summary
    Predicted to enable guanyl-nucleotide exchange factor activity and small GTPase binding activity. Predicted to act upstream of or within endocytosis. Predicted to be located in membrane. Predicted to be active in cytosol and endocytic vesicle. Orthologous to human GAPVD1 (GTPase activating protein and VPS9 domains 1). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See gapvd1 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (34338824..34427409, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (34421080..34509357, complement)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103911527 Neighboring gene uncharacterized LOC137496368 Neighboring gene E3 ubiquitin-protein ligase RBBP6-like Neighboring gene E3 ubiquitin-protein ligase RBBP6-like

    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 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. A long noncoding RNA cluster-based genomic locus maintains proper development and visual function. Wang F, et al. Nucleic Acids Res, 2019 Jul 9. PMID 31127312, Free PMC Article
    2. High-Resolution Proteomic Profiling Shows Sexual Dimorphism in Zebrafish Heart-Associated Proteins. Niksirat H, et al. J Proteome Res, 2021 Aug 6. PMID 34185526
    3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, 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

    General gene information

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    Markers

    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
    		  
    enables small GTPase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within endocytosis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    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
    		  

    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_001002420.2 → NP_001002420.2  GTPase-activating protein and VPS9 domain-containing protein 1

      Status: VALIDATED

      Source sequence(s)
      BX005399, BX511073
      UniProtKB/TrEMBL
      A0A8M1N0I2, E7F237
      Related
      ENSDARP00000102755.3, ENSDART00000112854.4
      Conserved Domains (2) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6
      pfam02204
      Location:1341 → 1442
      VPS9; Vacuolar sorting protein 9 (VPS9) 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_007119.7 Reference GRCz11 Primary Assembly

      Range
      34338824..34427409 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009304096.4 → XP_009302371.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A8M3AVA8
      Conserved Domains (2) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6
      pfam02204
      Location:1352 → 1453
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    2. XM_068222925.1 → XP_068079026.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X6

    3. XM_009304095.4 → XP_009302370.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A8M3BBW9
      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

    4. XM_009304094.4 → XP_009302369.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8M3AVB1
      Conserved Domains (2) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6
      pfam02204
      Location:1379 → 1480
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    5. XM_005167157.5 → XP_005167214.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A2R8Q516, A0A8M2BF51
      Related
      ENSDARP00000148180.1, ENSDART00000180173.1
      Conserved Domains (2) summary
      cd05129
      Location:84 → 449
      RasGAP_RAP6; Ras-GTPase Activating Domain of Rab5-activating protein 6
      pfam02204
      Location:1369 → 1470
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    6. XM_009304093.4 → XP_009302368.1  GTPase-activating protein and VPS9 domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8M3B237
      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

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394735.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      201960..262909 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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