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

Gene ID: 218232, updated on 21-Apr-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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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 (21) 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)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (2) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables phosphoprotein phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein tyrosine phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein tyrosine/serine/threonine phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cell projection organization IEA
Inferred from Electronic Annotation
more info
  
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 
involved_in dephosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in protein dephosphorylation IEA
Inferred from Electronic Annotation
more info
  
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 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

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