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    Atp13a1 ATPase 13A1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 290673, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Atp13a1provided by RGD
    Official Full Name
    ATPase 13A1provided by RGD
    Primary source
    RGD:1306033
    See related
    EnsemblRapid:ENSRNOG00000010776 AllianceGenome:RGD:1306033
    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
    Atp13a
    Summary
    Predicted to enable ATPase-coupled monoatomic cation transmembrane transporter activity; P-type ion transporter activity; and membrane protein dislocase activity. Predicted to be involved in extraction of mislocalized protein from ER membrane; intracellular calcium ion homeostasis; and transmembrane transport. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human ATP13A1 (ATPase 13A1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 134.5), Thymus (RPKM 127.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Atp13a1 in Genome Data Viewer
    Location:
    16p14
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (19649065..19665126, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (19615156..19631546, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (21364087..21380142, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene lysophosphatidic acid receptor 2 Neighboring gene Gem-interacting protein Neighboring gene zinc finger protein 709-like Neighboring gene U4 spliceosomal RNA Neighboring gene zinc finger protein 866

    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. The identification of genes specifically expressed in epithelial cells of the rat intestinal crypts. Sykes DE, et al. Differentiation, 1992 May. PMID 1639225
    2. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    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 ATPase-coupled monoatomic cation transmembrane transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables P-type ion transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables membrane protein dislocase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables membrane protein dislocase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in extraction of mislocalized protein from ER membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in extraction of mislocalized protein from ER membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intracellular calcium ion homeostasis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in monoatomic cation transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in transmembrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    endoplasmic reticulum transmembrane helix translocase
    Names
    ATPase type 13A1
    manganese-transporting ATPase 13A1
    probable cation-transporting ATPase 13A1
    NP_001099549.2
    XP_038950273.1
    XP_038950274.1
    XP_038950275.1
    XP_063131279.1

    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_001106079.2 → NP_001099549.2  endoplasmic reticulum transmembrane helix translocase

      See identical proteins and their annotated locations for NP_001099549.2

      Status: VALIDATED

      Source sequence(s)
      BC091262, CA340650, CB691511, CK601062, CO573028
      UniProtKB/TrEMBL
      A6KAB6, B5DEX7, G3V7I3
      Related
      ENSRNOP00000015247.3, ENSRNOT00000015247.7
      Conserved Domains (5) summary
      COG4087
      Location:825 → 878
      COG4087; Soluble P-type ATPase [General function prediction only]
      TIGR01657
      Location:79 → 1166
      P-ATPase-V; P-type ATPase of unknown pump specificity (type V)
      pfam00122
      Location:292 → 504
      E1-E2_ATPase; E1-E2 ATPase
      pfam12710
      Location:637 → 867
      HAD; haloacid dehalogenase-like hydrolase
      pfam13246
      Location:578 → 661
      Cation_ATPase; Cation transport ATPase (P-type)

    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_086034.1 Reference GRCr8

      Range
      19649065..19665126 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039094345.2 → XP_038950273.1  endoplasmic reticulum transmembrane helix translocase isoform X1

      Conserved Domains (1) summary
      cl21460
      Location:27 → 737
      HAD_like; Haloacid Dehalogenase-like Hydrolases

    2. XM_039094346.2 → XP_038950274.1  endoplasmic reticulum transmembrane helix translocase isoform X1

      Conserved Domains (1) summary
      cl21460
      Location:27 → 737
      HAD_like; Haloacid Dehalogenase-like Hydrolases

    3. XM_039094347.2 → XP_038950275.1  endoplasmic reticulum transmembrane helix translocase isoform X2

      Conserved Domains (1) summary
      cl21460
      Location:1 → 556
      HAD_like; Haloacid Dehalogenase-like Hydrolases

    4. XM_063275209.1 → XP_063131279.1  endoplasmic reticulum transmembrane helix translocase isoform X3

    RNA

    1. XR_005494574.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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