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    ptpn13 protein tyrosine phosphatase non-receptor type 13 [ Danio rerio (zebrafish) ]

    Gene ID: 560883, updated on 14-Nov-2024

    Summary

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    Official Symbol
    ptpn13provided by ZNC
    Official Full Name
    protein tyrosine phosphatase non-receptor type 13provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-070410-72
    See related
    Ensembl:ENSDARG00000103699 AllianceGenome:ZFIN:ZDB-GENE-070410-72
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fb50g04; zgc:162319
    Summary
    Predicted to enable phosphatidylinositol 3-kinase regulatory subunit binding activity and protein tyrosine phosphatase activity. Predicted to be involved in negative regulation of excitatory synapse assembly and regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction. Predicted to act upstream of or within protein dephosphorylation. Predicted to be located in cytoskeleton. Predicted to be active in cytoplasm and nucleus. Is expressed in ovary. Human ortholog(s) of this gene implicated in breast cancer; carcinoma (multiple); and colorectal cancer (multiple). Orthologous to human PTPN13 (protein tyrosine phosphatase non-receptor type 13). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ptpn13 in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    50
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (9387264..9570894, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (9294531..9469563, complement)

    Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137488862 Neighboring gene SDA1 domain containing 1 Neighboring gene mitogen-activated protein kinase 10 Neighboring gene Rho GTPase activating protein 24

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. The gsdf gene locus harbors evolutionary conserved and clustered genes preferentially expressed in fish previtellogenic oocytes. Gautier A, et al. Gene, 2011 Feb 1. PMID 21047546
    2. CD44a functions as a regulator of p53 signaling, apoptosis and autophagy in the antibacterial immune response. Cao L, et al. Commun Biol, 2022 Aug 30. PMID 36042265, Free PMC Article
    3. Differential oxidation of protein-tyrosine phosphatases during zebrafish caudal fin regeneration. Wu W, et al. Sci Rep, 2017 Aug 16. PMID 28814789, Free PMC Article
    4. Identification and expression of the family of classical protein-tyrosine phosphatases in zebrafish. van Eekelen M, et al. PLoS One, 2010 Sep 3. PMID 20838449, Free PMC Article
    5. Zebrafish as a model to study PTPs during development. Paardekooper Overman J, et al. Methods, 2014 Jan 15. PMID 23974070

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC162319

    Gene Ontology Provided by ZFIN

    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within dephosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in developmental process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein dephosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    tyrosine-protein phosphatase non-receptor type 13
    Names
    protein-tyrosine phosphatase BAS
    NP_001083012.2
    XP_005161523.1
    XP_009293438.1
    XP_068072003.1
    XP_068072004.1
    XP_068072005.1
    XP_068072006.1
    XP_068072008.1

    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_001089543.2 → NP_001083012.2  tyrosine-protein phosphatase non-receptor type 13

      Status: VALIDATED

      Source sequence(s)
      CR628389, CR678270, CU571388
      UniProtKB/TrEMBL
      A0A0R4IWH3, A0A8M1NEH2
      Related
      ENSDARP00000139515.1, ENSDART00000163874.2
      Conserved Domains (9) summary
      smart00194
      Location:2053 → 2304
      PTPc; Protein tyrosine phosphatase, catalytic domain
      smart00295
      Location:558 → 762
      B41; Band 4.1 homologues
      cd00047
      Location:2077 → 2304
      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 ...
      cd00992
      Location:1056 → 1140
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd13187
      Location:758 → 858
      FERM_C_PTPH13; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor 13 (PTPH13)
      pfam00373
      Location:649 → 762
      FERM_M; FERM central domain
      pfam09379
      Location:558 → 620
      FERM_N; FERM N-terminal domain
      pfam16599
      Location:1142 → 1319
      PTN13_u3; Unstructured linker region on PTN13 protein between PDZ
      cl21453
      Location:3 → 178
      PKc_like; Protein Kinases, catalytic domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007132.7 Reference GRCz11 Primary Assembly

      Range
      9387264..9570894 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068215907.1 → XP_068072008.1  tyrosine-protein phosphatase non-receptor type 13 isoform X7

    2. XM_068215904.1 → XP_068072005.1  tyrosine-protein phosphatase non-receptor type 13 isoform X3

    3. XM_068215905.1 → XP_068072006.1  tyrosine-protein phosphatase non-receptor type 13 isoform X5

    4. XM_068215903.1 → XP_068072004.1  tyrosine-protein phosphatase non-receptor type 13 isoform X2

    5. XM_068215902.1 → XP_068072003.1  tyrosine-protein phosphatase non-receptor type 13 isoform X1

    6. XM_009295163.4 → XP_009293438.1  tyrosine-protein phosphatase non-receptor type 13 isoform X6

      UniProtKB/TrEMBL
      A0A8M3ATM7
      Conserved Domains (10) summary
      smart00194
      Location:2196 → 2447
      PTPc; Protein tyrosine phosphatase, catalytic domain
      smart00228
      Location:1300 → 1391
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      smart00295
      Location:560 → 764
      B41; Band 4.1 homologues
      cd00047
      Location:2220 → 2447
      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 ...
      cd00992
      Location:1038 → 1122
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd13187
      Location:760 → 860
      FERM_C_PTPH13; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor 13 (PTPH13)
      pfam00373
      Location:651 → 764
      FERM_M; FERM central domain
      pfam09379
      Location:560 → 622
      FERM_N; FERM N-terminal domain
      pfam16599
      Location:1124 → 1301
      PTN13_u3; Unstructured linker region on PTN13 protein between PDZ
      cl21453
      Location:3 → 180
      PKc_like; Protein Kinases, catalytic domain

    7. XM_005161466.5 → XP_005161523.1  tyrosine-protein phosphatase non-receptor type 13 isoform X4

      UniProtKB/TrEMBL
      A0A8M2B8N1
      Related
      ENSDARP00000136300.1, ENSDART00000162225.2
      Conserved Domains (10) summary
      smart00194
      Location:2216 → 2467
      PTPc; Protein tyrosine phosphatase, catalytic domain
      smart00228
      Location:1320 → 1411
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      smart00295
      Location:560 → 764
      B41; Band 4.1 homologues
      cd00047
      Location:2240 → 2467
      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 ...
      cd00992
      Location:1058 → 1142
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd13187
      Location:760 → 860
      FERM_C_PTPH13; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor 13 (PTPH13)
      pfam00373
      Location:651 → 764
      FERM_M; FERM central domain
      pfam09379
      Location:560 → 622
      FERM_N; FERM N-terminal domain
      pfam16599
      Location:1144 → 1321
      PTN13_u3; Unstructured linker region on PTN13 protein between PDZ
      cl21453
      Location:3 → 180
      PKc_like; Protein Kinases, catalytic domain
    Nucleotide Protein Strain
    Heading Accession and Version

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