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    Ptpn20 protein tyrosine phosphatase, non-receptor type 20 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306281, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Ptpn20provided by RGD
    Official Full Name
    protein tyrosine phosphatase, non-receptor type 20provided by RGD
    Primary source
    RGD:1309812
    See related
    EnsemblRapid:ENSRNOG00000020203 AllianceGenome:RGD:1309812
    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
    Also known as
    Ptpn20b
    Summary
    Predicted to enable histone H2AXY142 phosphatase activity. Predicted to be involved in lymphangiogenesis. Predicted to be located in centriolar satellite. Predicted to be active in cytoplasm. Orthologous to human PTPN20 (protein tyrosine phosphatase non-receptor type 20). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 79.0) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ptpn20 in Genome Data Viewer
    Location:
    16p16
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (8891828..8956037)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (8885585..8949805)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (9907584..9973514)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene mitogen-activated protein kinase 8 Neighboring gene FERM and PDZ domain containing 2 Neighboring gene uncharacterized LOC108348435 Neighboring gene growth differentiation factor 10

    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. Ptpn20 deletion in H-Tx rats enhances phosphorylation of the NKCC1 cotransporter in the choroid plexus: an evidence of genetic risk for hydrocephalus in an experimental study. Xu H, et al. Fluids Barriers CNS, 2022 Jun 3. PMID 35658898, Free PMC Article
    2. 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
    3. 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

    What's a GeneRIF?
    1. Ptpn20 deletion in H-Tx rats enhances phosphorylation of the NKCC1 cotransporter in the choroid plexus: an evidence of genetic risk for hydrocephalus in an experimental study.
      Title: Ptpn20 deletion in H-Tx rats enhances phosphorylation of the NKCC1 cotransporter in the choroid plexus: an evidence of genetic risk for hydrocephalus in an experimental study.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables histone H2AXY142 phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    NOT enables protein tyrosine phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lymphangiogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in centriolar satellite ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in microtubule IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    tyrosine-protein phosphatase non-receptor type 20
    Names
    protein tyrosine phosphatase, non-receptor type 20B
    NP_001073618.1
    XP_006252827.1
    XP_006252829.1
    XP_017455576.1
    XP_038950398.1
    XP_038950399.1
    XP_038950400.1
    XP_063131432.1
    XP_063131433.1
    XP_063131434.1

    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_001080149.1 → NP_001073618.1  tyrosine-protein phosphatase non-receptor type 20

      See identical proteins and their annotated locations for NP_001073618.1

      Status: PROVISIONAL

      Source sequence(s)
      BC129117
      UniProtKB/Swiss-Prot
      A1L1L3
      Conserved Domains (2) summary
      smart00194
      Location:160 → 412
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:186 → 412
      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_086034.1 Reference GRCr8

      Range
      8891828..8956037
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006252765.5 → XP_006252827.1  tyrosine-protein phosphatase non-receptor type 20 isoform X1

      See identical proteins and their annotated locations for XP_006252827.1

      UniProtKB/Swiss-Prot
      A1L1L3
      Related
      ENSRNOP00000027352.4, ENSRNOT00000027352.7
      Conserved Domains (2) summary
      smart00194
      Location:160 → 412
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:186 → 412
      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 ...

    2. XM_006252767.5 → XP_006252829.1  tyrosine-protein phosphatase non-receptor type 20 isoform X1

      See identical proteins and their annotated locations for XP_006252829.1

      UniProtKB/Swiss-Prot
      A1L1L3
      Conserved Domains (2) summary
      smart00194
      Location:160 → 412
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:186 → 412
      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 ...

    3. XM_063275364.1 → XP_063131434.1  tyrosine-protein phosphatase non-receptor type 20 isoform X3

    4. XM_039094472.2 → XP_038950400.1  tyrosine-protein phosphatase non-receptor type 20 isoform X3

      Conserved Domains (1) summary
      smart00194
      Location:160 → 198
      PTPc; Protein tyrosine phosphatase, catalytic domain

    5. XM_063275362.1 → XP_063131432.1  tyrosine-protein phosphatase non-receptor type 20 isoform X1

      UniProtKB/Swiss-Prot
      A1L1L3

    6. XM_017600087.2 → XP_017455576.1  tyrosine-protein phosphatase non-receptor type 20 isoform X1

      UniProtKB/Swiss-Prot
      A1L1L3
      Conserved Domains (2) summary
      smart00194
      Location:160 → 412
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:186 → 412
      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 ...

    7. XM_063275363.1 → XP_063131433.1  tyrosine-protein phosphatase non-receptor type 20 isoform X2

      UniProtKB/TrEMBL
      A6KFU0

    8. XM_039094470.2 → XP_038950398.1  tyrosine-protein phosphatase non-receptor type 20 isoform X2

      UniProtKB/TrEMBL
      A6KFU0
      Conserved Domains (1) summary
      cl28904
      Location:40 → 246
      PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily

    9. XM_039094471.2 → XP_038950399.1  tyrosine-protein phosphatase non-receptor type 20 isoform X2

      UniProtKB/TrEMBL
      A6KFU0
      Conserved Domains (1) summary
      cl28904
      Location:40 → 246
      PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A1L1L3.1 GenPept UniProtKB/Swiss-Prot:A1L1L3

    Gene LinkOut

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