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    vps9d1 VPS9 domain containing 1 [ Danio rerio (zebrafish) ]

    Gene ID: 503773, updated on 14-Nov-2024

    Summary

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    Official Symbol
    vps9d1provided by ZNC
    Official Full Name
    VPS9 domain containing 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050306-57
    See related
    Ensembl:ENSDARG00000019195 AllianceGenome:ZFIN:ZDB-GENE-050306-57
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    c18h16orf7; id:ibd5127; wu:fa56d01; zgc:113159; zgc:158780
    Summary
    Predicted to enable guanyl-nucleotide exchange factor activity and small GTPase binding activity. Predicted to act upstream of or within vesicle-mediated transport. Predicted to be active in cytosol and endocytic vesicle. Is expressed in brain; forebrain; and neural rod. Orthologous to human VPS9D1 (VPS9 domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See vps9d1 in Genome Data Viewer
    Location:
    chromosome: 18
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (14633979..14675265)
    105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (14665464..14699884)

    Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene WAP four-disulfide core domain 1 Neighboring gene UTP4 small subunit processome component Neighboring gene si:dkey-238o13.4 Neighboring gene spermatogenesis associated 2-like Neighboring gene peptide deformylase, mitochondrial

    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. Dynamically regulated focal adhesions coordinate endothelial cell remodelling in developing vasculature. Chau TCY, et al. Development, 2022 Dec 1. PMID 36314606, Free PMC Article
    2. RNA structural dynamics regulate early embryogenesis through controlling transcriptome fate and function. Shi B, et al. Genome Biol, 2020 May 18. PMID 32423473, Free PMC Article
    3. Identification of the zebrafish maternal and paternal transcriptomes. Harvey SA, et al. Development, 2013 Jul. PMID 23720042, Free PMC Article
    4. A gene expression screen in zebrafish embryogenesis. Kudoh T, et al. Genome Res, 2001 Dec. PMID 11731487
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC158780

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    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_001013351.3 → NP_001013369.3  VPS9 domain-containing protein 1

      Status: PROVISIONAL

      Source sequence(s)
      BC129447
      UniProtKB/TrEMBL
      A0A8M1N4I8, A1L2C2
      Related
      ENSDARP00000117841.1, ENSDART00000133834.3
      Conserved Domains (1) summary
      pfam02204
      Location:536 → 648
      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_007129.7 Reference GRCz11 Primary Assembly

      Range
      14633979..14675265
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068214762.1 → XP_068070863.1  VPS9 domain-containing protein 1 isoform X1

    2. XM_005169928.5 → XP_005169985.1  VPS9 domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8M2BH61, A1L2C2
      Conserved Domains (1) summary
      pfam02204
      Location:562 → 674
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    3. XM_021467642.2 → XP_021323317.1  VPS9 domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8M9P121, A1L2C2
      Conserved Domains (1) summary
      pfam02204
      Location:515 → 627
      VPS9; Vacuolar sorting protein 9 (VPS9) domain
    Nucleotide Protein
    Heading Accession and Version

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