U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 192336, updated on 11-Apr-2024

Summary

Go to the top of the page Help
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 transmembrane transporter activity. 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 vacuolar membrane. Predicted to be part of proton-transporting V-type ATPase, V0 domain. Predicted to be integral component of membrane. Is expressed in several structures, including digestive system; gonad; integument; nervous system; and unfertilized egg. Human ortholog(s) of this gene implicated in thyroid gland carcinoma. Orthologous to human ATP6V0C (ATPase H+ transporting V0 subunit c). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See atp6v0ca in Genome Data Viewer
Location:
chromosome: 3
Exon count:
4
Annotation release Status Assembly Chr Location
106 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 si:dkey-81l17.6 Neighboring gene transfer RNA cysteine (anticodon GCA)

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

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

Go to the top of the page Help

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

Go to the top of the page Help
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)

Go to the top of the page Help

NEW Try the new Transcript table

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: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases
Research Materials
Tools
Miscellaneous