Ptpn6 protein tyrosine phosphatase, non-receptor type 6 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ptpn6provided by MGI
Official Full Name: protein tyrosine phosphatase, non-receptor type 6provided by MGI
Primary source: MGI:MGI:96055
See related: Ensembl:ENSMUSG00000004266 AllianceGenome:MGI:96055
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: me; hcp; Hcph; Ptp1C; SHP-1; 70Z-SHP; SH-PTP1; PTPTY-42
Summary: Enables several functions, including phosphotyrosine residue binding activity; protein domain specific binding activity; and protein tyrosine phosphatase activity. Involved in several processes, including epididymis development; negative regulation of cytokine production; and negative regulation of inflammatory response to wounding. Acts upstream of or within several processes, including hemopoiesis; negative regulation of protein phosphorylation; and regulation of lymphocyte activation. Located in cell-cell junction. Part of alpha-beta T cell receptor complex. Is active in cytoplasm. Is expressed in several structures, including central nervous system; liver; retina; and thymus primordium. Orthologous to human PTPN6 (protein tyrosine phosphatase non-receptor type 6). [provided by Alliance of Genome Resources, Apr 2025]
Expression: Biased expression in spleen adult (RPKM 123.8), thymus adult (RPKM 59.8) and 14 other tissues See more
Orthologs: human all
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Genomic context

Location:: 6 F2; 6 59.17 cM

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	6	NC_000072.7 (124697670..124715672, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	6	NC_000072.6 (124720707..124738709, complement)

Chromosome 6 - NC_000072.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

YTHDC1 inhibits osteoclast differentiation to alleviate osteoporosis by enhancing PTPN6 messenger RNA stability in an m6A-hUR-dependent manner.
Title: YTHDC1 inhibits osteoclast differentiation to alleviate osteoporosis by enhancing PTPN6 messenger RNA stability in an m6A-hUR-dependent manner.
[Effect of SHP-1 knockout in airway epithelial cells on emphysema phenotype in chronic obstructive pulmonary disease in mice].
Title: [Effect of SHP-1 knockout in airway epithelial cells on emphysema phenotype in chronic obstructive pulmonary disease in mice].
Deletion of protein tyrosine phosphatase SHP-1 restores SUMOylation of podocin and reverses the progression of diabetic kidney disease.
Title: Deletion of protein tyrosine phosphatase SHP-1 restores SUMOylation of podocin and reverses the progression of diabetic kidney disease.
SHP-1 localization to the activating immune synapse promotes NK cell tolerance in MHC class I deficiency.
Title: SHP-1 localization to the activating immune synapse promotes NK cell tolerance in MHC class I deficiency.
SHP-1 Protein Tyrosine Phosphatase Affects Early Postnatal Bone Development in Mice.
Title: SHP-1 Protein Tyrosine Phosphatase Affects Early Postnatal Bone Development in Mice.
CD47 halts Ptpn6-deficient neutrophils from provoking lethal inflammation.
Title: CD47 halts Ptpn6-deficient neutrophils from provoking lethal inflammation.
Repair of Limb Ischemia Is Dependent on Hematopoietic Stem Cell Specific-SHP-1 Regulation of TGF-beta1.
Title: Repair of Limb Ischemia Is Dependent on Hematopoietic Stem Cell Specific-SHP-1 Regulation of TGF-β1.
The regulatory effects of PTPN6 on inflammatory process: Reports from mice to men.
Title: The regulatory effects of PTPN6 on inflammatory process: Reports from mice to men.
Ets-2 deletion in myeloid cells attenuates IL-1alpha-mediated inflammatory disease caused by a Ptpn6 point mutation.
Title: Ets-2 deletion in myeloid cells attenuates IL-1α-mediated inflammatory disease caused by a Ptpn6 point mutation.
Diabetes Impaired Ischemia-Induced PDGF (Platelet-Derived Growth Factor) Signaling Actions and Vessel Formation Through the Activation of Scr Homology 2-Containing Phosphatase-1.
Title: Diabetes Impaired Ischemia-Induced PDGF (Platelet-Derived Growth Factor) Signaling Actions and Vessel Formation Through the Activation of Scr Homology 2-Containing Phosphatase-1.

Submit: New GeneRIF Correction See all GeneRIFs (140)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Chemically induced (ENU) (9) 1 citation
Endonuclease-mediated (4) 1 citation
Spontaneous (4) 1 citation
Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

M68902 (e-PCR)
- UniSTS:124975

AI411273 (e-PCR)
- UniSTS:250464

Ptpn6 (e-PCR), detects polymorphism
- UniSTS:536485

Hcph (e-PCR), detects polymorphism
- UniSTS:143332

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables SH2 domain binding	IDA Inferred from Direct Assay more info	PubMed
enables SH3 domain binding	IDA Inferred from Direct Assay more info	PubMed
enables cell adhesion molecule binding	IPI Inferred from Physical Interaction more info	PubMed
enables cytokine receptor binding	ISO Inferred from Sequence Orthology more info
enables histone H2AXY142 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables natural killer cell lectin-like receptor binding	ISO Inferred from Sequence Orthology more info
enables non-membrane spanning protein tyrosine phosphatase activity	IBA Inferred from Biological aspect of Ancestor more info
enables non-membrane spanning protein tyrosine phosphatase activity	IEA Inferred from Electronic Annotation more info
enables phosphorylation-dependent protein binding	IEA Inferred from Electronic Annotation more info
enables phosphorylation-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables phosphotyrosine residue binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphotyrosine residue binding	IPI Inferred from Physical Interaction more info	PubMed
enables phosphotyrosine residue binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase binding	IEA Inferred from Electronic Annotation more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables protein tyrosine phosphatase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein tyrosine phosphatase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein tyrosine phosphatase activity	ISO Inferred from Sequence Orthology more info
enables protein tyrosine phosphatase activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein tyrosine phosphatase activity	TAS Traceable Author Statement more info
enables protein tyrosine phosphatase activity, metal-dependent	IEA Inferred from Electronic Annotation more info
enables transmembrane receptor protein tyrosine phosphatase activity	ISO Inferred from Sequence Orthology more info
enables transmembrane receptor protein tyrosine phosphatase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within B cell receptor signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within B cell receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in CD27 signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in MAPK cascade	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of MAPK cascade	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of T cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of T cell receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cytokine-mediated signaling pathway	TAS Traceable Author Statement more info	PubMed
involved_in epididymis development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within intracellular signal transduction	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within megakaryocyte development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic cell cycle	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within natural killer cell mediated cytotoxicity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of B cell receptor signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of MAP kinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of MAPK cascade	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of T cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of T cell receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of humoral immune response mediated by circulating immunoglobulin	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of inflammatory response to wounding	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of inflammatory response to wounding	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of innate immune response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of interleukin-6 production	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of lipopolysaccharide-mediated signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of mast cell activation involved in immune response	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of neutrophil activation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of peptidyl-tyrosine phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of tumor necrosis factor production	IGI Inferred from Genetic Interaction more info	PubMed
involved_in peptidyl-tyrosine dephosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of peptidyl-tyrosine phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within platelet aggregation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within platelet formation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within positive regulation of cell adhesion mediated by integrin	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein dephosphorylation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein dephosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein dephosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of B cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in regulation of ERK1 and ERK2 cascade	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of G1/S transition of mitotic cell cycle	IEA Inferred from Electronic Annotation more info
involved_in regulation of G1/S transition of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of release of sequestered calcium ion into cytosol	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
part_of alpha-beta T cell receptor complex	IDA Inferred from Direct Assay more info	PubMed
located_in apical dendrite	ISO Inferred from Sequence Orthology more info
located_in cell-cell junction	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	TAS Traceable Author Statement more info	PubMed
located_in cytosol	TAS Traceable Author Statement more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	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
located_in nucleus	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: tyrosine-protein phosphatase non-receptor type 6

Names: SH2 phosphatase 1; hematopoietic cell protein-tyrosine phosphatase; motheaten; protein-tyrosine phosphatase 1C

NP_001071173.1

EC 3.1.3.48

NP_038573.2

EC 3.1.3.48

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)

NM_001077705.2 → NP_001071173.1 tyrosine-protein phosphatase non-receptor type 6 isoform b

See identical proteins and their annotated locations for NP_001071173.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) represents the longer transcript and encodes the longer isoform (b).

Source sequence(s)

AK150509, AK151077, BY035180

Consensus CDS

CCDS51908.1

UniProtKB/TrEMBL

Q3TE70, Q3UB72, Q3UCJ0

Related

ENSMUSP00000129124.3, ENSMUST00000171549.9

Conserved Domains (4) summary

cd09931
Location:111 → 217

SH2_C-SH2_SHP_like; C-terminal Src homology 2 (C-SH2) domain found in SH2 domain Phosphatases (SHP) proteins

cd10340
Location:6 → 103

SH2_N-SH2_SHP_like; N-terminal Src homology 2 (N-SH2) domain found in SH2 domain Phosphatases (SHP) proteins

smart00194
Location:245 → 516

PTPc; Protein tyrosine phosphatase, catalytic domain

cd00047
Location:275 → 516

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 ...
NM_013545.3 → NP_038573.2 tyrosine-protein phosphatase non-receptor type 6 isoform a

See identical proteins and their annotated locations for NP_038573.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) contains an alternate 5' terminal exon and initiates translation at an alternate start codon, compared to variant 2. It encodes isoform a, which has a shorter and distinct N-terminus, compared to isoform b.

Source sequence(s)

AC164157, AK151077, AK151623

Consensus CDS

CCDS39628.1

UniProtKB/Swiss-Prot

O35128, P29351, Q63872, Q63873, Q63874, Q921G3, Q9QVA6, Q9QVA7, Q9QVA8, Q9R0V6

UniProtKB/TrEMBL

Q3TE70, Q3UB72

Related

ENSMUSP00000108103.4, ENSMUST00000112484.10

Conserved Domains (3) summary

cd09931
Location:109 → 215

SH2_C-SH2_SHP_like; C-terminal Src homology 2 (C-SH2) domain found in SH2 domain Phosphatases (SHP) proteins

cd10340
Location:3 → 101

SH2_N-SH2_SHP_like; N-terminal Src homology 2 (N-SH2) domain found in SH2 domain Phosphatases (SHP) proteins

cd14606
Location:253 → 518

PTPc-N6; catalytic domain of tyrosine-protein phosphatase non-receptor type 6