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    Atp6v1a ATPase H+ transporting V1 subunit A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 685232, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Atp6v1aprovided by RGD
    Official Full Name
    ATPase H+ transporting V1 subunit Aprovided by RGD
    Primary source
    RGD:1596464
    See related
    Ensembl:ENSRNOG00000001992 AllianceGenome:RGD:1596464
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Atp6v1a1
    Summary
    Predicted to enable proton-transporting ATPase activity, rotational mechanism. Predicted to be involved in cellular iron ion homeostasis; cellular response to increased oxygen levels; and proton transmembrane transport. Predicted to be located in several cellular components, including apical plasma membrane; microvillus; and secretory granule. Predicted to be part of vacuolar proton-transporting V-type ATPase, V1 domain. Human ortholog(s) of this gene implicated in autosomal recessive cutis laxa type IID and developmental and epileptic encephalopathy 93. Orthologous to human ATP6V1A (ATPase H+ transporting V1 subunit A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 766.9), Kidney (RPKM 593.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    11q21
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (70066800..70120603)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (56561444..56614694)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (61531386..61584634)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene U2 spliceosomal RNA Neighboring gene upstream transcription factor family member 3 Neighboring gene uncharacterized LOC120095658 Neighboring gene N(alpha)-acetyltransferase 50, NatE catalytic subunit Neighboring gene uncharacterized LOC134481070 Neighboring gene GRAM domain containing 1C Neighboring gene zinc finger DHHC-type palmitoyltransferase 23

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Vacuolar ATPase regulates surfactant secretion in rat alveolar type II cells by modulating lamellar body calcium. Chintagari NR, et al. PLoS One, 2010 Feb 16. PMID 20169059, Free PMC Article
    2. Interaction of dynamin I with NAP-22, a neuronal protein enriched in the presynaptic region. Ueno S, et al. Neurosci Lett, 2018 May 14. PMID 29604406
    3. V-ATPase expression in the mouse olfactory epithelium. Paunescu TG, et al. Am J Physiol Cell Physiol, 2008 Oct. PMID 18667600, Free PMC Article
    4. Structure of V-ATPase from the mammalian brain. Abbas YM, et al. Science, 2020 Mar 13. PMID 32165585, Free PMC Article
    5. The vacuolar-ATPase complex and assembly factors, TMEM199 and CCDC115, control HIF1α prolyl hydroxylation by regulating cellular iron levels. Miles AL, et al. Elife, 2017 Mar 15. PMID 28296633, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data show that silencing of V-ATPase a1 and B2 subunits decreased stimulated surfactant secretion.
      Title: Vacuolar ATPase regulates surfactant secretion in rat alveolar type II cells by modulating lamellar body calcium.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables proton-transporting ATP synthase activity, rotational mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables proton-transporting ATPase activity, rotational mechanism IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables proton-transporting ATPase activity, rotational mechanism ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in ATP metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to increased oxygen levels ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intracellular iron ion homeostasis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proton motive force-driven ATP synthesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in proton transmembrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in synaptic vesicle lumen acidification ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of ATPase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in clathrin-coated vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in extrinsic component of synaptic vesicle membrane EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in extrinsic component of synaptic vesicle membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in microvillus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of proton-transporting V-type ATPase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of proton-transporting V-type ATPase, V1 domain ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in secretory granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transmembrane transporter complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of vacuolar proton-transporting V-type ATPase, V1 domain ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    V-type proton ATPase catalytic subunit A
    Names
    ATPase, H+ transporting, lysosomal V1 subunit A
    NP_001101788.1
    XP_006248410.1
    XP_006248411.1
    XP_063126837.1

    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_001108318.2 → NP_001101788.1  V-type proton ATPase catalytic subunit A

      See identical proteins and their annotated locations for NP_001101788.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A1W2Q641, A6IR15
      Related
      ENSRNOP00000002727.6, ENSRNOT00000002727.6
      Conserved Domains (1) summary
      TIGR01042
      Location:17 → 609
      V-ATPase_V1_A; V-type (H+)-ATPase V1, A subunit

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086029.1 Reference GRCr8

      Range
      70066800..70120603
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063270767.1 → XP_063126837.1  V-type proton ATPase catalytic subunit A isoform X1

      UniProtKB/TrEMBL
      A6IR15

    2. XM_006248348.5 → XP_006248410.1  V-type proton ATPase catalytic subunit A isoform X1

      See identical proteins and their annotated locations for XP_006248410.1

      UniProtKB/TrEMBL
      A0A1W2Q641, A6IR15
      Conserved Domains (1) summary
      TIGR01042
      Location:17 → 609
      V-ATPase_V1_A; V-type (H+)-ATPase V1, A subunit

    3. XM_006248349.5 → XP_006248411.1  V-type proton ATPase catalytic subunit A isoform X1

      See identical proteins and their annotated locations for XP_006248411.1

      UniProtKB/TrEMBL
      A0A1W2Q641, A6IR15
      Conserved Domains (1) summary
      TIGR01042
      Location:17 → 609
      V-ATPase_V1_A; V-type (H+)-ATPase V1, A subunit
    Nucleotide Protein Strain
    Heading Accession and Version

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