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Ptpn13 protein tyrosine phosphatase, non-receptor type 13 [ Rattus norvegicus (Norway rat) ]

Gene ID: 498331, updated on 2-Nov-2024

Summary

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Symbol
Ptpn13provided by RGD
Full Name
protein tyrosine phosphatase, non-receptor type 13provided by RGD
Primary source
RGD:1563360
See related
EnsemblRapid:ENSRNOG00000002061 AllianceGenome:RGD:1563360
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
ptp; Ptp-bl
Summary
Predicted to enable phosphatidylinositol 3-kinase regulatory subunit binding activity and protein tyrosine phosphatase activity. Involved in cellular response to toxic substance; negative regulation of excitatory synapse assembly; and negative regulation of protein phosphorylation. Located in cell body. Biomarker of transient cerebral ischemia. 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]
Expression
Biased expression in Kidney (RPKM 261.9), Lung (RPKM 157.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ptpn13 in Genome Data Viewer
Location:
14p22
Exon count:
48
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (6412841..6587238, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (6108202..6282619, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (7688551..7863664, complement)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102546534 Neighboring gene solute carrier family 10 member 6 Neighboring gene uncharacterized LOC134481819 Neighboring gene uncharacterized LOC134481699 Neighboring gene NADH:ubiquinone oxidoreductase subunit B4-like 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 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. The expression patterns and the diagnostic/prognostic roles of PTPN family members in digestive tract cancers. Chen J, et al. Cancer Cell Int, 2020. PMID 32536826, Free PMC Article
  2. Expression of Fas system-related genes in the testis during development and after toxicant exposure. Boekelheide K, et al. Toxicol Lett, 1998 Dec 28. PMID 10022303
  3. The protein tyrosine phosphatase-BL, modulates pancreatic beta-cell proliferation by interaction with the Wnt signalling pathway. Welters HJ, et al. J Endocrinol, 2008 Jun. PMID 18413347
  4. FAP-1 and NF-κB expressions in oral squamous cell carcinoma as potential markers for chemo-radio sensitivity and prognosis. Nariai Y, et al. Int J Oral Maxillofac Surg, 2011 Apr. PMID 21176871
  5. The nonreceptor-type tyrosine phosphatase PTPN13 is a tumor suppressor gene in non-small cell lung cancer. Scrima M, et al. Am J Pathol, 2012 Mar. PMID 22245727

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. PTP-BL plays an important role in the regulation of cell cycle progression in pancreatic beta-cells, and that it interacts functionally with components of the Wnt signalling pathway.
    Title: The protein tyrosine phosphatase-BL, modulates pancreatic beta-cell proliferation by interaction with the Wnt signalling pathway.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables phosphatidylinositol 3-kinase regulatory subunit binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables phosphatidylinositol 3-kinase regulatory subunit binding ISO
Inferred from Sequence Orthology
more info
  
enables protein tyrosine phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein tyrosine phosphatase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cellular response to toxic substance IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in negative regulation of excitatory synapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of excitatory synapse assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of protein phosphorylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of protein phosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of protein phosphorylation ISO
Inferred from Sequence Orthology
more info
  
involved_in peptidyl-tyrosine dephosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in peptidyl-tyrosine dephosphorylation ISO
Inferred from Sequence Orthology
more info
  
involved_in protein dephosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in protein dephosphorylation ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cell body IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in fibrillar center IEA
Inferred from Electronic Annotation
more info
  
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
  
located_in lamellipodium ISO
Inferred from Sequence Orthology
more info
  
located_in midbody ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
tyrosine-protein phosphatase non-receptor type 13
Names
protein Tyr phosphatase
tyrosine-protein phosphatase non-receptor type 13-like
NP_001094259.1
XP_038948202.1
XP_038948204.1
XP_063129523.1
XP_063129524.1
XP_063129525.1

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_001100789.1 → NP_001094259.1  tyrosine-protein phosphatase non-receptor type 13

    See identical proteins and their annotated locations for NP_001094259.1

    Status: VALIDATED

    Source sequence(s)
    CH474022
    UniProtKB/TrEMBL
    A0A0G2K1K1, A6K5V1
    Related
    ENSRNOP00000071873.2, ENSRNOT00000087081.3
    Conserved Domains (10) summary
    smart00194
    Location:2185 → 2437
    PTPc; Protein tyrosine phosphatase, catalytic domain
    smart00228
    Location:1488 → 1578
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    smart00295
    Location:566 → 774
    B41; Band 4.1 homologues
    smart00750
    Location:3 → 190
    KIND; kinase non-catalytic C-lobe domain
    cd00047
    Location:2211 → 2437
    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:1082 → 1166
    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) ...
    pfam00373
    Location:661 → 774
    FERM_M; FERM central domain
    pfam09379
    Location:569 → 631
    FERM_N; FERM N-terminal domain
    pfam16599
    Location:1168 → 1356
    PTN13_u3; Unstructured linker region on PTN13 protein between PDZ
    cl17171
    Location:770 → 870
    PH-like; Pleckstrin homology-like domain

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_086032.1 Reference GRCr8

    Range
    6412841..6587238 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039092276.2 → XP_038948204.1  tyrosine-protein phosphatase non-receptor type 13 isoform X5

    UniProtKB/TrEMBL
    A0A8I6A6L8
    Related
    ENSRNOP00000087844.1, ENSRNOT00000119111.2
    Conserved Domains (8) summary
    smart00228
    Location:1299 → 1389
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    smart00295
    Location:566 → 774
    B41; Band 4.1 homologues
    smart00750
    Location:3 → 190
    KIND; kinase non-catalytic C-lobe domain
    cd00992
    Location:893 → 977
    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) ...
    cd17195
    Location:564 → 659
    FERM_F1_PTPN13; FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, F1 sub-domain, found in tyrosine-protein phosphatase non-receptor type 13 (PTPN13)
    cd14597
    Location:2022 → 2255
    PTPc-N13; catalytic domain of tyrosine-protein phosphatase non-receptor type 13
    pfam16599
    Location:979 → 1167
    PTN13_u3; Unstructured linker region on PTN13 protein between PDZ
    cl17171
    Location:770 → 870
    PH-like; Pleckstrin homology-like domain

  2. XM_063273454.1 → XP_063129524.1  tyrosine-protein phosphatase non-receptor type 13 isoform X3

  3. XM_063273453.1 → XP_063129523.1  tyrosine-protein phosphatase non-receptor type 13 isoform X2

    UniProtKB/TrEMBL
    G3V9S3
    Related
    ENSRNOP00000057876.3, ENSRNOT00000061162.6

  4. XM_039092274.2 → XP_038948202.1  tyrosine-protein phosphatase non-receptor type 13 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K1K1
    Conserved Domains (8) summary
    smart00228
    Location:1493 → 1583
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    smart00295
    Location:566 → 774
    B41; Band 4.1 homologues
    smart00750
    Location:3 → 190
    KIND; kinase non-catalytic C-lobe domain
    cd00992
    Location:1082 → 1166
    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) ...
    cd17195
    Location:564 → 659
    FERM_F1_PTPN13; FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, F1 sub-domain, found in tyrosine-protein phosphatase non-receptor type 13 (PTPN13)
    cd14597
    Location:2216 → 2449
    PTPc-N13; catalytic domain of tyrosine-protein phosphatase non-receptor type 13
    pfam16599
    Location:1168 → 1356
    PTN13_u3; Unstructured linker region on PTN13 protein between PDZ
    cl17171
    Location:770 → 870
    PH-like; Pleckstrin homology-like domain

  5. XM_063273455.1 → XP_063129525.1  tyrosine-protein phosphatase non-receptor type 13 isoform X4

    UniProtKB/TrEMBL
    A0A8I5ZZK7
    Related
    ENSRNOP00000083228.2, ENSRNOT00000099356.2
Nucleotide Protein Strain
Heading Accession and Version

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