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    Ptpdc1 protein tyrosine phosphatase domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 218232, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Ptpdc1provided by MGI
    Official Full Name
    protein tyrosine phosphatase domain containing 1provided by MGI
    Primary source
    MGI:MGI:2145430
    See related
    Ensembl:ENSMUSG00000038042 AllianceGenome:MGI:2145430
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Naa-1; Ptpcd1
    Summary
    The protein encoded by this gene is a centrosomal mitotic phosphatase. This protein has been implicated in centrosomal duplication and cytokinesis. In addition, knockdown of expression levels in non-cycling cells results in extra long cilia, suggesting that this protein may function in regulating cilia length independent of a function in cell cycle control. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Sep 2014]
    Expression
    Biased expression in testis adult (RPKM 13.7), frontal lobe adult (RPKM 4.4) and 13 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ptpdc1 in Genome Data Viewer
    Location:
    13 A5; 13 24.86 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (48731345..48779148, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (48577869..48625672, complement)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 6720427I07 gene Neighboring gene microRNA let7a-1 Neighboring gene STARR-positive B cell enhancer ABC_E1876 Neighboring gene STARR-positive B cell enhancer ABC_E1164 Neighboring gene STARR-seq mESC enhancer starr_34462 Neighboring gene STARR-seq mESC enhancer starr_34463 Neighboring gene STARR-positive B cell enhancer ABC_E5395 Neighboring gene predicted gene, 25232 Neighboring gene predicted gene, 36550 Neighboring gene STARR-positive B cell enhancer ABC_E7236 Neighboring gene predicted gene, 36606 Neighboring gene BarH-like homeobox 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

    Bibliography

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    Related articles in PubMed

    1. Ptpcd-1 is a novel cell cycle related phosphatase that regulates centriole duplication and cytokinesis. Zineldeen DH, et al. Biochem Biophys Res Commun, 2009 Mar 13. PMID 19284988
    2. Non-synonymous FGD3 Variant as Positional Candidate for Disproportional Tall Stature Accounting for a Carcass Weight QTL (CW-3) and Skeletal Dysplasia in Japanese Black Cattle. Takasuga A, et al. PLoS Genet, 2015 Aug. PMID 26306008, Free PMC Article
    3. An Orphan CpG Island Drives Expression of a let-7 miRNA Precursor with an Important Role in Mouse Development. Koerner MV, et al. Epigenomes, 2019 Mar. PMID 31354981, Free PMC Article
    4. Functional characterization of putative cilia genes by high-content analysis. Lai CK, et al. Mol Biol Cell, 2011 Apr. PMID 21289087, Free PMC Article
    5. Tissue expression patterns identify mouse cilia genes. McClintock TS, et al. Physiol Genomics, 2008 Jan 17. PMID 17971504

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein tyrosine phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein tyrosine phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cilium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cilium assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within smoothened signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein tyrosine phosphatase domain-containing protein 1
    NP_001288710.1
    NP_001361684.1
    NP_997115.1

    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_001301781.1 → NP_001288710.1  protein tyrosine phosphatase domain-containing protein 1 isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AI843923, AK030415, AK132781, CJ169499
      Consensus CDS
      CCDS88450.1
      UniProtKB/Swiss-Prot
      Q6NZK8
      Related
      ENSMUSP00000152771.2, ENSMUST00000222028.2
      Conserved Domains (1) summary
      smart00404
      Location:215 → 296
      PTPc_motif; Protein tyrosine phosphatase, catalytic domain motif

    2. NM_001374755.1 → NP_001361684.1  protein tyrosine phosphatase domain-containing protein 1 isoform 3

      Status: REVIEWED

      Source sequence(s)
      AC147162
      Consensus CDS
      CCDS88449.1
      UniProtKB/TrEMBL
      A0A5F8MPG6
      Related
      ENSMUSP00000158961.2, ENSMUST00000238995.2
      Conserved Domains (1) summary
      cd14506
      Location:124 → 328
      PTP_PTPDC1; protein tyrosine phosphatase domain of PTP domain-containing protein 1

    3. NM_207232.2 → NP_997115.1  protein tyrosine phosphatase domain-containing protein 1 isoform 2

      See identical proteins and their annotated locations for NP_997115.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AI843923, AK030415, CJ169499
      Consensus CDS
      CCDS26495.1
      UniProtKB/Swiss-Prot
      Q3V0Z6, Q3V3K9, Q3V3Y0, Q6NV81, Q6NZK8, Q8BKD9
      Related
      ENSMUSP00000047374.10, ENSMUST00000035824.11
      Conserved Domains (1) summary
      smart00404
      Location:154 → 235
      PTPc_motif; Protein tyrosine phosphatase, catalytic domain motif

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000079.7 Reference GRCm39 C57BL/6J

      Range
      48731345..48779148 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6NZK8.1 GenPept UniProtKB/Swiss-Prot:Q6NZK8

    Gene LinkOut

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

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