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    Ptpdc1 protein tyrosine phosphatase domain containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291022, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ptpdc1provided by RGD
    Official Full Name
    protein tyrosine phosphatase domain containing 1provided by RGD
    Primary source
    RGD:1307698
    See related
    EnsemblRapid:ENSRNOG00000086607 AllianceGenome:RGD:1307698
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable protein tyrosine phosphatase activity. Predicted to be involved in cilium assembly. Predicted to act upstream of or within smoothened signaling pathway. Predicted to be located in nucleoplasm. Predicted to be active in cytoplasm. Orthologous to human PTPDC1 (protein tyrosine phosphatase domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 69.3), Kidney (RPKM 48.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ptpdc1 in Genome Data Viewer
    Location:
    17p14
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (16235311..16284160)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (16028964..16076512)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (16333369..16381887)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102552096 Neighboring gene BARX homeobox 1 Neighboring gene uncharacterized LOC134482824 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC120097935 Neighboring gene microRNA let-7a-1

    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. Functional characterization of putative cilia genes by high-content analysis. Lai CK, et al. Mol Biol Cell, 2011 Apr. PMID 21289087, Free PMC Article
    2. 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

    Process Evidence Code Pubs
    acts_upstream_of_or_within cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within smoothened signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    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_001099574.1
    XP_063132222.1
    XP_063132223.1
    XP_063132224.1
    XP_063132225.1
    XP_063132226.1
    XP_063132227.1
    XP_063132228.1
    XP_063132229.1

    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_001106104.1 → NP_001099574.1  protein tyrosine phosphatase domain-containing protein 1

      See identical proteins and their annotated locations for NP_001099574.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473977
      UniProtKB/TrEMBL
      A6J6Y7, A6J6Y8
      Conserved Domains (1) summary
      cl21483
      Location:113 → 226
      PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...

    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_086035.1 Reference GRCr8

      Range
      16235311..16284160
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276153.1 → XP_063132223.1  protein tyrosine phosphatase domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A6J6Y8
      Related
      ENSRNOP00000103066.1, ENSRNOT00000169259.1

    2. XM_063276158.1 → XP_063132228.1  protein tyrosine phosphatase domain-containing protein 1 isoform X6

      UniProtKB/TrEMBL
      A6J6Y7, A6J6Y8

    3. XM_063276159.1 → XP_063132229.1  protein tyrosine phosphatase domain-containing protein 1 isoform X7

      UniProtKB/TrEMBL
      A6J6Y8

    4. XM_063276157.1 → XP_063132227.1  protein tyrosine phosphatase domain-containing protein 1 isoform X6

      UniProtKB/TrEMBL
      A6J6Y7, A6J6Y8

    5. XM_063276156.1 → XP_063132226.1  protein tyrosine phosphatase domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A6J6Y8
      Related
      ENSRNOP00000098824.1, ENSRNOT00000171451.1

    6. XM_063276152.1 → XP_063132222.1  protein tyrosine phosphatase domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A6J6Y8

    7. XM_063276154.1 → XP_063132224.1  protein tyrosine phosphatase domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A6J6Y8

    8. XM_063276155.1 → XP_063132225.1  protein tyrosine phosphatase domain-containing protein 1 isoform X4

      UniProtKB/TrEMBL
      A6J6Y8

    RNA

    1. XR_010058821.1 RNA Sequence

    2. XR_010058819.1 RNA Sequence

    3. XR_010058823.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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