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Aliases for PTPN4 Gene

Aliases for PTPN4 Gene

  • Protein Tyrosine Phosphatase, Non-Receptor Type 4 2 3 5
  • Protein Tyrosine Phosphatase, Non-Receptor Type 4 (Megakaryocyte) 2 3
  • PTPase-MEG1 3 4
  • MEG 3 4
  • Tyrosine-Protein Phosphatase Non-Receptor Type 4 3
  • Megakaryocyte Protein-Tyrosine Phosphatase 3
  • Protein Tyrosine Phosphatase MEG1 3
  • Protein-Tyrosine Phosphatase MEG1 4
  • Megakaryocyte Phosphatase 3
  • EC 4
  • PTPMEG1 3
  • PTPMEG 3

External Ids for PTPN4 Gene

Previous GeneCards Identifiers for PTPN4 Gene

  • GC02P117722
  • GC02P118437
  • GC02P120424
  • GC02P120612
  • GC02P120233
  • GC02P112841

Summaries for PTPN4 Gene

Entrez Gene Summary for PTPN4 Gene

  • The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. PTPs are known to be signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. This protein contains a C-terminal PTP domain and an N-terminal domain homologous to the band 4.1 superfamily of cytoskeletal-associated proteins. This PTP has been shown to interact with glutamate receptor delta 2 and epsilon subunits, and is thought to play a role in signalling downstream of the glutamate receptors through tyrosine dephosphorylation. [provided by RefSeq, Jul 2008]

GeneCards Summary for PTPN4 Gene

PTPN4 (Protein Tyrosine Phosphatase, Non-Receptor Type 4) is a Protein Coding gene. Among its related pathways are Activated TLR4 signalling and Innate Immune System. Gene Ontology (GO) annotations related to this gene include phosphatase activity and cytoskeletal protein binding. An important paralog of this gene is PTPN3.

UniProtKB/Swiss-Prot for PTPN4 Gene

  • May act at junctions between the membrane and the cytoskeleton.

Gene Wiki entry for PTPN4 Gene

Additional gene information for PTPN4 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PTPN4 Gene

Genomics for PTPN4 Gene

GeneHancer (GH) Regulatory Elements for PTPN4 Gene

Promoters and enhancers for PTPN4 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02J119758 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 650.7 +1.3 1324 4.7 CLOCK MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF213 ZNF143 ZNF263 SP3 LOC101927764 PTPN4 EPB41L5 GC02P119982
GH02J119694 Enhancer 1 Ensembl ENCODE 10.7 -64.3 -64281 2 SOX13 FOXA2 SAP130 ZFP64 ARID4B CEBPG GLI4 CDC5L ZKSCAN1 TEAD3 PIR62578 PTPN4 TMEM177
GH02J119820 Enhancer 0.8 Ensembl 12 +60.8 60770 0.4 PKNOX1 JUN MZF1 KLF14 ZIC2 ZFHX2 GLIS2 ZNF366 PRDM10 ZNF600 PTPN4 EPB41L5 TMEM177 LOC101927764 GC02P119982
GH02J119791 Enhancer 0.6 ENCODE 11.6 +34.2 34220 4.6 USF1 ZNF680 USF2 SP1 POU5F1 ZNF444 ZNF558 TRIM28 PTPN4 EPB41L5 LOC101927764 GC02P119982
GH02J119702 Enhancer 0.9 ENCODE 6 -56.6 -56591 0.2 ELF3 RB1 ZFP64 ARID4B KLF17 SIN3A ZNF48 RAD21 ZNF614 ZNF143 MTND4P26 PTPN4 RPL17P15 PIR60099
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PTPN4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PTPN4 gene promoter:
  • Chx10
  • Pax-5
  • MyoD
  • aMEF-2
  • MEF-2A
  • Pax-2
  • Pax-2a
  • C/EBPbeta
  • MEF-2
  • Pax-2b

Genomic Locations for PTPN4 Gene

Genomic Locations for PTPN4 Gene
225,269 bases
Plus strand
224,188 bases
Plus strand

Genomic View for PTPN4 Gene

Genes around PTPN4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PTPN4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PTPN4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PTPN4 Gene

Proteins for PTPN4 Gene

  • Protein details for PTPN4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Tyrosine-protein phosphatase non-receptor type 4
    Protein Accession:
    Secondary Accessions:
    • B2RBV8
    • Q9UDA7

    Protein attributes for PTPN4 Gene

    926 amino acids
    Molecular mass:
    105911 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for PTPN4 Gene

neXtProt entry for PTPN4 Gene

Post-translational modifications for PTPN4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for PTPN4 Gene

Domains & Families for PTPN4 Gene

Gene Families for PTPN4 Gene

Suggested Antigen Peptide Sequences for PTPN4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the protein-tyrosine phosphatase family. Non-receptor class subfamily.
  • Belongs to the protein-tyrosine phosphatase family. Non-receptor class subfamily.
genes like me logo Genes that share domains with PTPN4: view

Function for PTPN4 Gene

Molecular function for PTPN4 Gene

UniProtKB/Swiss-Prot Function:
May act at junctions between the membrane and the cytoskeleton.
UniProtKB/Swiss-Prot CatalyticActivity:
Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate.

Enzyme Numbers (IUBMB) for PTPN4 Gene

Phenotypes From GWAS Catalog for PTPN4 Gene

Gene Ontology (GO) - Molecular Function for PTPN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004725 protein tyrosine phosphatase activity IEA --
GO:0004726 non-membrane spanning protein tyrosine phosphatase activity TAS,IEA --
GO:0005515 protein binding IEA,IPI 16169070
GO:0008092 cytoskeletal protein binding IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with PTPN4: view
genes like me logo Genes that share phenotypes with PTPN4: view

Animal Models for PTPN4 Gene

MGI Knock Outs for PTPN4:

Animal Model Products

  • Taconic Biosciences Mouse Models for PTPN4

CRISPR Products

miRNA for PTPN4 Gene

miRTarBase miRNAs that target PTPN4

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PTPN4

Clone Products

  • Addgene plasmids for PTPN4

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PTPN4 Gene

Localization for PTPN4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PTPN4 Gene

Cell membrane; Peripheral membrane protein; Cytoplasmic side. Cytoplasm, cytoskeleton.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PTPN4 gene
Compartment Confidence
plasma membrane 5
cytoskeleton 4
cytosol 4
nucleus 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleus (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PTPN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm TAS,IDA 10940933
GO:0005856 cytoskeleton IEA --
GO:0005886 plasma membrane IEA --
GO:0009898 cytoplasmic side of plasma membrane IDA 10940933
genes like me logo Genes that share ontologies with PTPN4: view

Pathways & Interactions for PTPN4 Gene

genes like me logo Genes that share pathways with PTPN4: view

Pathways by source for PTPN4 Gene

Gene Ontology (GO) - Biological Process for PTPN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006470 protein dephosphorylation TAS,IEA 1648233
GO:0016311 dephosphorylation IEA --
GO:0035335 peptidyl-tyrosine dephosphorylation IEA --
GO:0071345 cellular response to cytokine stimulus TAS --
genes like me logo Genes that share ontologies with PTPN4: view

No data available for SIGNOR curated interactions for PTPN4 Gene

Drugs & Compounds for PTPN4 Gene

(4) Drugs for PTPN4 Gene - From: DrugBank, DGIdb, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Alendronate Approved Pharma Inhibition, Inhibitor, inhibitor, Target Bone resorption inhibitor, Osteoclast function modifiers (important in bone metastasis) 165
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0

(1) Additional Compounds for PTPN4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • [po(OH)3]
  • Acide phosphorique
  • Acidum phosphoricum
  • H3PO4
  • Orthophosphoric acid
genes like me logo Genes that share compounds with PTPN4: view

Transcripts for PTPN4 Gene

Unigene Clusters for PTPN4 Gene

Protein tyrosine phosphatase, non-receptor type 4 (megakaryocyte):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PTPN4

Clone Products

  • Addgene plasmids for PTPN4

Alternative Splicing Database (ASD) splice patterns (SP) for PTPN4 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16a · 16b ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^
SP1: - - -

ExUns: 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28

Relevant External Links for PTPN4 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PTPN4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PTPN4 Gene

mRNA differential expression in normal tissues according to GTEx for PTPN4 Gene

This gene is overexpressed in Brain - Cerebellum (x4.2).

Protein differential expression in normal tissues from HIPED for PTPN4 Gene

This gene is overexpressed in NK cells (19.8), CD8 Tcells (14.3), Plasma (14.2), and Spinal cord (12.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PTPN4 Gene

NURSA nuclear receptor signaling pathways regulating expression of PTPN4 Gene:


SOURCE GeneReport for Unigene cluster for PTPN4 Gene:


Evidence on tissue expression from TISSUES for PTPN4 Gene

  • Nervous system(4.7)
  • Intestine(4.1)
genes like me logo Genes that share expression patterns with PTPN4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PTPN4 Gene

Orthologs for PTPN4 Gene

This gene was present in the common ancestor of animals.

Orthologs for PTPN4 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PTPN4 34 33
  • 99.68 (n)
(Canis familiaris)
Mammalia PTPN4 34 33
  • 95.39 (n)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 93 (a)
-- 34
  • 89 (a)
(Monodelphis domestica)
Mammalia PTPN4 34
  • 93 (a)
(Bos Taurus)
Mammalia PTPN4 34 33
  • 92.58 (n)
(Mus musculus)
Mammalia Ptpn4 16 34 33
  • 92.44 (n)
(Rattus norvegicus)
Mammalia Ptpn4 33
  • 92.19 (n)
(Gallus gallus)
Aves PTPN4 34 33
  • 85.31 (n)
(Anolis carolinensis)
Reptilia PTPN4 34
  • 91 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.14815 33
(Danio rerio)
Actinopterygii ptpn4a 34 33
  • 72.89 (n)
ptpn4b 34
  • 72 (a)
wufi40g11 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007130 33
  • 49.77 (n)
fruit fly
(Drosophila melanogaster)
Insecta Ptpmeg 34 35 33
  • 48.48 (n)
CG5022 35
  • 33 (a)
(Caenorhabditis elegans)
Secernentea ptp-1 34 35 33
  • 59.97 (n)
F25H5.7 35
  • 36 (a)
F55F8.7 35
  • 36 (a)
F36H12.10 35
  • 32 (a)
C02B10.6 35
  • 32 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 47 (a)
Cin.11441 33
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.11441 33
Species where no ortholog for PTPN4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for PTPN4 Gene

Gene Tree for PTPN4 (if available)
Gene Tree for PTPN4 (if available)
Evolutionary constrained regions (ECRs) for PTPN4: view image

Paralogs for PTPN4 Gene

(54) SIMAP similar genes for PTPN4 Gene using alignment to 12 proteins:

  • F5H020_HUMAN
  • F5H1A0_HUMAN
  • J3QT41_HUMAN
  • J3QT59_HUMAN
  • J3QT89_HUMAN
  • Q4ZG31_HUMAN
  • Q53Q76_HUMAN
  • Q53QV5_HUMAN
  • Q580X3_HUMAN Pseudogenes for PTPN4 Gene

genes like me logo Genes that share paralogs with PTPN4: view

Variants for PTPN4 Gene

Sequence variations from dbSNP and Humsavar for PTPN4 Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000022895 -- 119,983,105(+) C/G 3_prime_UTR_variant
rs1000034113 -- 119,937,168(+) A/G intron_variant
rs1000036303 -- 119,914,339(+) A/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000050201 -- 119,868,907(+) G/A/C genic_upstream_transcript_variant, intron_variant
rs1000058841 -- 119,795,278(+) C/T genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PTPN4 Gene

Variant ID Type Subtype PubMed ID
esv3592173 CNV loss 21293372
nsv1007653 CNV loss 25217958
nsv2893 CNV insertion 18451855
nsv471832 CNV novel sequence insertion 20440878
nsv476638 CNV novel sequence insertion 20440878
nsv834345 CNV gain 17160897

Variation tolerance for PTPN4 Gene

Residual Variation Intolerance Score: 21.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.33; 63.10% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PTPN4 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PTPN4 Gene

Disorders for PTPN4 Gene

Additional Disease Information for PTPN4

No disorders were found for PTPN4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PTPN4 Gene

Publications for PTPN4 Gene

  1. Identification, cloning, and expression of a cytosolic megakaryocyte protein-tyrosine-phosphatase with sequence homology to cytoskeletal protein 4.1. (PMID: 1648233) Gu MX … Majerus PW (Proceedings of the National Academy of Sciences of the United States of America 1991) 2 3 4 22 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. Molecular cloning and characterization of a protein tyrosine phosphatase enriched in testis, a putative murine homologue of human PTPMEG. (PMID: 11054567) Park KW … Baik J (Gene 2000) 3 22 58
  4. Structure-based optimization of salt-bridge network across the complex interface of PTPN4 PDZ domain with its peptide ligands in neuroglioma. (PMID: 27923202) Xiao X … Chen B (Computational biology and chemistry 2017) 3 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for PTPN4 Gene

Sources for PTPN4 Gene

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