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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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