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

Gene ID: 560883, updated on 11-Apr-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 peptidyl-tyrosine dephosphorylation. Predicted to act upstream of or within gene silencing by RNA and protein dephosphorylation. Predicted to be located in cytoskeleton. Predicted to be active in cytoplasm and nucleus. Is expressed in ovary. Orthologous to human PTPN13 (protein tyrosine phosphatase non-receptor type 13). [provided by Alliance of Genome Resources, Apr 2022]
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
106 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (9387264..9562297, 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 uracil nucleotide/cysteinyl leukotriene receptor-like 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 phosphatidylinositol 3-kinase regulatory subunit binding IBA
Inferred from Biological aspect of Ancestor
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 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 peptidyl-tyrosine dephosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulatory ncRNA-mediated gene silencing IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
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_009293437.1
XP_009293438.1
XP_009293439.1
XP_009293440.1
XP_009293441.1

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: Danio rerio Annotation Release 106 details...Open this link in a new tab

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..9562297 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009295166.3 → XP_009293441.1  tyrosine-protein phosphatase non-receptor type 13 isoform X6

    UniProtKB/TrEMBL
    A0A8M3ALY6
    Conserved Domains (10) summary
    smart00194
    Location:2191 → 2442
    PTPc; Protein tyrosine phosphatase, catalytic domain
    smart00228
    Location:1300 → 1386
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    smart00295
    Location:560 → 764
    B41; Band 4.1 homologues
    cd00047
    Location:2215 → 2442
    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

  2. XM_009295163.3 → XP_009293438.1  tyrosine-protein phosphatase non-receptor type 13 isoform X3

    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

  3. XM_009295164.3 → XP_009293439.1  tyrosine-protein phosphatase non-receptor type 13 isoform X4

    UniProtKB/TrEMBL
    A0A8M3AL92
    Conserved Domains (10) summary
    smart00194
    Location:2168 → 2419
    PTPc; Protein tyrosine phosphatase, catalytic domain
    smart00228
    Location:1302 → 1363
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    smart00295
    Location:560 → 764
    B41; Band 4.1 homologues
    cd00047
    Location:2192 → 2419
    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 → 1302
    PTN13_u3; Unstructured linker region on PTN13 protein between PDZ
    cl21453
    Location:3 → 180
    PKc_like; Protein Kinases, catalytic domain

  4. XM_009295162.3 → XP_009293437.1  tyrosine-protein phosphatase non-receptor type 13 isoform X2

    UniProtKB/TrEMBL
    A0A0R4IPR0, A0A8M3AWM5
    Related
    ENSDARP00000136300.1, ENSDART00000162225.2
    Conserved Domains (10) summary
    smart00194
    Location:2211 → 2462
    PTPc; Protein tyrosine phosphatase, catalytic domain
    smart00228
    Location:1320 → 1406
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    smart00295
    Location:560 → 764
    B41; Band 4.1 homologues
    cd00047
    Location:2235 → 2462
    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

  5. XM_005161466.4 → XP_005161523.1  tyrosine-protein phosphatase non-receptor type 13 isoform X1

    UniProtKB/TrEMBL
    A0A8M2B8N1
    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

  6. XM_009295165.3 → XP_009293440.1  tyrosine-protein phosphatase non-receptor type 13 isoform X5

    UniProtKB/TrEMBL
    A0A8M3B4I1
    Related
    ENSDARP00000139064.1, ENSDART00000168173.2
    Conserved Domains (7) summary
    smart00295
    Location:560 → 764
    B41; Band 4.1 homologues
    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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