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    atp6v0ca ATPase H+ transporting V0 subunit ca [ Danio rerio (zebrafish) ]

    Gene ID: 192336, updated on 9-Dec-2024

    Summary

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    Official Symbol
    atp6v0caprovided by ZNC
    Official Full Name
    ATPase H+ transporting V0 subunit caprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-020419-23
    See related
    Ensembl:ENSDARG00000057853 AllianceGenome:ZFIN:ZDB-GENE-020419-23
    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
    atp6l; cb993; atp6v0c; fb57d09; CHUNP6904; wu:fb57d09
    Summary
    Predicted to enable proton-transporting ATPase activity, rotational mechanism. Acts upstream of or within several processes, including apical protein localization; embryonic retina morphogenesis in camera-type eye; and notochord cell vacuolation. Predicted to be located in clathrin-coated vesicle membrane; synaptic vesicle membrane; and vacuolar membrane. Predicted to be part of proton-transporting V-type ATPase, V0 domain. Predicted to be active in membrane. Is expressed in several structures, including digestive system; gonad; integument; nervous system; and unfertilized egg. Human ortholog(s) of this gene implicated in early-onset epilepsy 3 and thyroid gland carcinoma. Orthologous to human ATP6V0C (ATPase H+ transporting V0 subunit c). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
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    Genomic context

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    See atp6v0ca in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (16044678..16055463, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (15894878..15905663, complement)

    Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene mitochondrial ribosomal protein S34 Neighboring gene splA/ryanodine receptor domain and SOCS box containing 3a Neighboring gene uncharacterized LOC137490510 Neighboring gene transfer RNA cysteine (anticodon GCA)

    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. The vacuolar-ATPase complex regulates retinoblast proliferation and survival, photoreceptor morphogenesis, and pigmentation in the zebrafish eye. Nuckels RJ, et al. Invest Ophthalmol Vis Sci, 2009 Feb. PMID 18836173
    2. Tris(1,3-dichloro-2-propyl) phosphate disrupts dorsoventral patterning in zebrafish embryos. Dasgupta S, et al. PeerJ, 2017. PMID 29259843, Free PMC Article
    3. The V-ATPase accessory protein Atp6ap1b mediates dorsal forerunner cell proliferation and left-right asymmetry in zebrafish. Gokey JJ, et al. Dev Biol, 2015 Nov 1. PMID 26254189, Free PMC Article
    4. The zebrafish mutants for the V-ATPase subunits d, ac45, E, H and c and their variable pigment dilution phenotype. Ramos-Balderas JL, et al. BMC Res Notes, 2013 Feb 2. PMID 23375000, Free PMC Article
    5. Autolysosome biogenesis and developmental senescence are regulated by both Spns1 and v-ATPase. Sasaki T, et al. Autophagy, 2017 Feb. PMID 27875093, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC174785

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables proton transmembrane transporter activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables proton-transporting ATPase activity, rotational mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within apical protein localization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryonic retina morphogenesis in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within monoatomic ion transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within notochord cell vacuolation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within proton transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within response to yeast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within retina development in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in clathrin-coated vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of proton-transporting V-type ATPase, V0 domain IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of proton-transporting two-sector ATPase complex, proton-transporting domain IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in synaptic vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in vacuolar membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in vacuole IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ATPase H+ transporting V0 subunit ca
    Names
    ATPase, H+ transporting, lysosomal (vacuolar proton pump) 16kD
    ATPase, H+ transporting, lysosomal 16kDa, V0 subunit c
    ATPase, H+ transporting, lysosomal, V0 subunit c, a
    ATPase, H+ transporting, lysosomal, V0 subunit ca
    NP_001098606.2
    NP_775362.2

    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_001105136.2 → NP_001098606.2  ATPase H+ transporting V0 subunit ca

      See identical proteins and their annotated locations for NP_001098606.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      CR387933
      UniProtKB/TrEMBL
      A0A8M1PA97, F1QSP4
      Related
      ENSDARP00000014897.7, ENSDART00000023859.9
      Conserved Domains (3) summary
      TIGR01100
      Location:11 → 116
      V_ATP_synt_C; vacuolar ATP synthase 16 kDa proteolipid subunit
      PRK14893
      Location:12 → 154
      PRK14893; V-type ATP synthase subunit K; Provisional
      pfam00137
      Location:90 → 151
      ATP-synt_C; ATP synthase subunit C

    2. NM_173255.2 → NP_775362.2  ATPase H+ transporting V0 subunit ca

      See identical proteins and their annotated locations for NP_775362.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      CR387933
      UniProtKB/TrEMBL
      A0A8M1PA97, F1QSP4
      Related
      ENSDARP00000110086.2, ENSDART00000123621.3
      Conserved Domains (3) summary
      TIGR01100
      Location:11 → 116
      V_ATP_synt_C; vacuolar ATP synthase 16 kDa proteolipid subunit
      PRK14893
      Location:12 → 154
      PRK14893; V-type ATP synthase subunit K; Provisional
      pfam00137
      Location:90 → 151
      ATP-synt_C; ATP synthase subunit C

    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_007114.7 Reference GRCz11 Primary Assembly

      Range
      16044678..16055463 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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