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    Atp13a4 ATPase type 13A4 [ Mus musculus (house mouse) ]

    Gene ID: 224079, updated on 5-Jan-2023

    Summary

    Official Symbol
    Atp13a4provided by MGI
    Official Full Name
    ATPase type 13A4provided by MGI
    Primary source
    MGI:MGI:1924456
    See related
    Ensembl:ENSMUSG00000038094 AllianceGenome:MGI:1924456
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    4832416L12; 4631413J11Rik; 9330174J19Rik
    Summary
    Predicted to enable P-type calcium transporter activity. Acts upstream of or within cellular calcium ion homeostasis. Located in endoplasmic reticulum membrane and endosome membrane. Is expressed in brain and embryo. Orthologous to human ATP13A4 (ATPase 13A4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in genital fat pad adult (RPKM 4.5), cerebellum adult (RPKM 2.4) and 6 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Atp13a4 in Genome Data Viewer
    Location:
    16; 16 B2
    Exon count:
    36
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (29208685..29363682, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (29389103..29544864, complement)

    Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene predicted gene 8253 Neighboring gene phospholipase A and acyltransferase 1 Neighboring gene ATPase type 13A5 Neighboring gene zinc finger protein 788 pseudogene Neighboring gene OPA1, mitochondrial dynamin like GTPase Neighboring gene predicted gene, 32740 Neighboring gene predicted gene, 46567

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    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
    PubMed 
    enables P-type calcium transporter activity IC
    Inferred by Curator
    more info
    PubMed 
    enables P-type transmembrane transporter activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables polyamine transmembrane transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables transporter activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in intracellular calcium ion homeostasis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within intracellular calcium ion homeostasis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in monoatomic cation transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in polyamine transmembrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in early endosome membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in late endosome membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in late endosome membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in recycling endosome membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    probable cation-transporting ATPase 13A4
    Names
    P5-ATPase
    type V P-type ATPase
    NP_001158084.1
    NP_001158085.1
    NP_766201.3
    XP_006522114.1
    XP_006522116.1
    XP_006522117.1
    XP_006522118.1
    XP_017172444.1
    XP_017172445.1
    XP_030104933.1
    XP_036015780.1
    XP_036015781.1
    XP_036015782.1
    XP_036015783.1
    XP_036015784.1

    NCBI Reference Sequences (RefSeq)

    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_001164612.1NP_001158084.1  probable cation-transporting ATPase 13A4 isoform 1

      See identical proteins and their annotated locations for NP_001158084.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC175464
      Consensus CDS
      CCDS49816.1
      UniProtKB/TrEMBL
      S4R234
      Related
      ENSMUSP00000138479.2, ENSMUST00000182627.8
      Conserved Domains (6) summary
      COG4087
      Location:821870
      COG4087; Soluble P-type ATPase [General function prediction only]
      TIGR01657
      Location:181115
      P-ATPase-V; P-type ATPase of unknown pump specificity (type V)
      pfam00122
      Location:228472
      E1-E2_ATPase; E1-E2 ATPase
      pfam00690
      Location:170218
      Cation_ATPase_N; Cation transporter/ATPase, N-terminus
      pfam12409
      Location:18137
      P5-ATPase; P5-type ATPase cation transporter
      pfam13246
      Location:596635
      Cation_ATPase; Cation transport ATPase (P-type)
    2. NM_001164613.1NP_001158085.1  probable cation-transporting ATPase 13A4 isoform 3

      See identical proteins and their annotated locations for NP_001158085.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, 3' UTR, and 3' coding sequence compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AK028776, BE955453
      Consensus CDS
      CCDS49817.1
      UniProtKB/Swiss-Prot
      Q5XF90
      UniProtKB/TrEMBL
      A0A0R4J0M2
      Related
      ENSMUSP00000048753.8, ENSMUST00000039090.9
      Conserved Domains (2) summary
      cd07542
      Location:174762
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:18137
      P5-ATPase; P5-type ATPase cation transporter
    3. NM_172613.4NP_766201.3  probable cation-transporting ATPase 13A4 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 3' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AC175464
      Consensus CDS
      CCDS59623.1
      UniProtKB/TrEMBL
      E9QPP7
      Related
      ENSMUSP00000060987.9, ENSMUST00000057018.15
      Conserved Domains (6) summary
      COG4087
      Location:802851
      COG4087; Soluble P-type ATPase [General function prediction only]
      TIGR01657
      Location:181096
      P-ATPase-V; P-type ATPase of unknown pump specificity (type V)
      pfam00122
      Location:228453
      E1-E2_ATPase; E1-E2 ATPase
      pfam00690
      Location:170218
      Cation_ATPase_N; Cation transporter/ATPase, N-terminus
      pfam12409
      Location:18137
      P5-ATPase; P5-type ATPase cation transporter
      pfam13246
      Location:577616
      Cation_ATPase; Cation transport ATPase (P-type)

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000082.7 Reference GRCm39 C57BL/6J

      Range
      29208685..29363682 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017316955.3XP_017172444.1  probable cation-transporting ATPase 13A4 isoform X3

      Conserved Domains (2) summary
      cd07542
      Location:1741001
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:18137
      P5-ATPase; P5-type ATPase cation transporter
    2. XM_006522051.5XP_006522114.1  probable cation-transporting ATPase 13A4 isoform X4

      Conserved Domains (2) summary
      cd07542
      Location:174931
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:18137
      P5-ATPase; P5-type ATPase cation transporter
    3. XM_036159889.1XP_036015782.1  probable cation-transporting ATPase 13A4 isoform X2

      Conserved Domains (2) summary
      cd07542
      Location:174956
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:17142
      P5-ATPase; P5-type ATPase cation transporter
    4. XM_036159887.1XP_036015780.1  probable cation-transporting ATPase 13A4 isoform X1

      Conserved Domains (2) summary
      cd07542
      Location:143970
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:48111
      P5-ATPase; P5-type ATPase cation transporter
    5. XM_036159890.1XP_036015783.1  probable cation-transporting ATPase 13A4 isoform X5

      Conserved Domains (1) summary
      cd07542
      Location:82909
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
    6. XM_036159891.1XP_036015784.1  probable cation-transporting ATPase 13A4 isoform X6

      Conserved Domains (1) summary
      cd07542
      Location:1769
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
    7. XM_036159888.1XP_036015781.1  probable cation-transporting ATPase 13A4 isoform X1

      Conserved Domains (2) summary
      cd07542
      Location:143970
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:48111
      P5-ATPase; P5-type ATPase cation transporter
    8. XM_030249073.1XP_030104933.1  probable cation-transporting ATPase 13A4 isoform X9

      Conserved Domains (1) summary
      cd07542
      Location:1471
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
    9. XM_006522055.4XP_006522118.1  probable cation-transporting ATPase 13A4 isoform X9

      Conserved Domains (1) summary
      cd07542
      Location:1471
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
    10. XM_006522053.5XP_006522116.1  probable cation-transporting ATPase 13A4 isoform X7

      Conserved Domains (2) summary
      cd07542
      Location:174948
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:18137
      P5-ATPase; P5-type ATPase cation transporter
    11. XM_006522054.4XP_006522117.1  probable cation-transporting ATPase 13A4 isoform X8

      Conserved Domains (2) summary
      cd07542
      Location:174915
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:18137
      P5-ATPase; P5-type ATPase cation transporter
    12. XM_017316956.3XP_017172445.1  probable cation-transporting ATPase 13A4 isoform X10

      UniProtKB/Swiss-Prot
      Q5XF90
      UniProtKB/TrEMBL
      A0A0R4J0M2
      Conserved Domains (2) summary
      cd07542
      Location:174762
      P-type_ATPase_cation; P-type cation-transporting ATPases, similar to human ATPase type 13A2 (ATP13A2) protein and Saccharomyces cerevisiae Ypk9p
      pfam12409
      Location:18137
      P5-ATPase; P5-type ATPase cation transporter

    RNA

    1. XR_004939185.1 RNA Sequence

    2. XR_001781812.3 RNA Sequence

    3. XR_003951779.2 RNA Sequence

      Related
      ENSMUST00000182013.8
    4. XR_384556.5 RNA Sequence

    5. XR_004939184.1 RNA Sequence