Ptpn6 protein tyrosine phosphatase, non-receptor type 6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ptpn6provided by RGD
Official Full Name: protein tyrosine phosphatase, non-receptor type 6provided by RGD
Primary source: RGD:620660
See related: Ensembl:ENSRNOG00000014294 AllianceGenome:RGD:620660
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: Ptph6; Shp-1
Summary: Enables natural killer cell lectin-like receptor binding activity. Involved in response to wounding. Predicted to be located in cell-cell junction; cytoplasm; and nuclear lumen. Predicted to be part of alpha-beta T cell receptor complex. Orthologous to human PTPN6 (protein tyrosine phosphatase non-receptor type 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 653.7), Thymus (RPKM 363.3) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q42

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (159212320..159237069, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (157526034..157550783, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (157239141..157263890, complement)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Angiotensin (ang) 1-7 inhibits ang II-induced atrial fibrosis through regulating the interaction of proto-oncogene tyrosine-protein kinase Src (c-Src) and Src homology region 2 domain-containing phosphatase-1 (SHP-1)).
Title: Angiotensin (ang) 1-7 inhibits ang II-induced atrial fibrosis through regulating the interaction of proto-oncogene tyrosine-protein kinase Src (c-Src) and Src homology region 2 domain-containing phosphatase-1 (SHP-1)).
Histone deacetylase 3 suppresses the expression of SHP-1 via deacetylation of DNMT1 to promote heart failure.
Title: Histone deacetylase 3 suppresses the expression of SHP-1 via deacetylation of DNMT1 to promote heart failure.
SHP-1 suppresses endotoxin-induced uveitis by inhibiting the TAK1/JNK pathway.
Title: SHP-1 suppresses endotoxin-induced uveitis by inhibiting the TAK1/JNK pathway.
Y-box protein 1 promotes hypoxia/reoxygenation- or ischemia/reperfusion-induced cardiomyocyte apoptosis via SHP-1-dependent STAT3 inactivation.
Title: Y-box protein 1 promotes hypoxia/reoxygenation- or ischemia/reperfusion-induced cardiomyocyte apoptosis via SHP-1-dependent STAT3 inactivation.
Results revealed a specific regulation by SHP1 of GluN2A-dependent pain transmission. Authors provided evidence that interference with SHP1/GluN2A interaction in spinal dorsal horn generated an effective analgesic action against inflammatory pain.
Title: Disruption of SHP1/NMDA receptor signaling in spinal cord dorsal horn alleviated inflammatory pain.
Shp-1 increased in DRGs of rats with CFA-induced inflammatory pain, which was involved in protecting against excessive thermal hyperalgesia.
Title: Shp-1 dephosphorylates TRPV1 in dorsal root ganglion neurons and alleviates CFA-induced inflammatory pain in rats.
Andrographolide activates the PP2A-p38MAPK-p53-Bax cascade.
Title: Andrographolide induces vascular smooth muscle cell apoptosis through a SHP-1-PP2A-p38MAPK-p53 cascade.
Rat nephrin Tyr1127 and Tyr1152 are essential for SHP-1 induced nephrin dephosphorylation under high-glucose conditions.
Title: Increased SHP-1 protein expression by high glucose levels reduces nephrin phosphorylation in podocytes.
Data indicate that protein tyrosine phosphatases SHP-1, SHP-2 and PTP1B overexpressed during the development of cerulein -induced acute pancreatitis can be modulated by extracellular signal-regulated kinases (ERK1/2) and c-Jun NH2-terminal kinase (JNK).
Title: Modulation in the expression of SHP-1, SHP-2 and PTP1B due to the inhibition of MAPKs, cAMP and neutrophils early on in the development of cerulein-induced acute pancreatitis in rats.
SHP-1 as an off-switch of PDGFR signaling appears to emerge as a valuable molecular target to trigger as to prevent hepatic stellate cells (HSC) proliferation and the fibrogenic effects of HSC activation.
Title: The tyrosine phosphatase SHP-1 inhibits proliferation of activated hepatic stellate cells by impairing PDGF receptor signaling.

Submit: New GeneRIF Correction See all GeneRIFs (23)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AI411273 (e-PCR)
- UniSTS:250464

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

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SH2 domain binding	IEA Inferred from Electronic Annotation more info
enables SH2 domain binding	ISO Inferred from Sequence Orthology more info
enables SH3 domain binding	IEA Inferred from Electronic Annotation more info
enables SH3 domain binding	ISO Inferred from Sequence Orthology more info
enables cell adhesion molecule binding	IEA Inferred from Electronic Annotation more info
enables cell adhesion molecule binding	ISO Inferred from Sequence Orthology more info
enables cytokine receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables natural killer cell lectin-like receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables non-membrane spanning protein tyrosine phosphatase activity	IBA Inferred from Biological aspect of Ancestor 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	IEA Inferred from Electronic Annotation more info
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	ISO Inferred from Sequence Orthology more info
enables protein tyrosine phosphatase activity	TAS Traceable Author Statement more info	PubMed
enables transmembrane receptor protein tyrosine phosphatase activity	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
involved_in B cell receptor signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within B cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in MAPK cascade	IEA Inferred from Electronic Annotation more info
acts_upstream_of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in T cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of T cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in T cell receptor signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of T cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
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 cellular response to macrophage colony-stimulating factor stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to organic substance	IEA Inferred from Electronic Annotation more info
involved_in epididymis development	IEA Inferred from Electronic Annotation more info
involved_in epididymis development	ISO Inferred from Sequence Orthology more info
involved_in hematopoietic progenitor cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in intracellular signal transduction	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within intracellular signal transduction	ISO Inferred from Sequence Orthology more info
involved_in megakaryocyte development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within megakaryocyte development	ISO Inferred from Sequence Orthology more info
involved_in mitotic cell cycle	IBA Inferred from Biological aspect of Ancestor more info
involved_in natural killer cell mediated cytotoxicity	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within natural killer cell mediated cytotoxicity	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of MAPK cascade	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of T cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of T cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of T cell receptor signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of T cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of humoral immune response mediated by circulating immunoglobulin	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of humoral immune response mediated by circulating immunoglobulin	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of inflammatory response to wounding	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of inflammatory response to wounding	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interleukin-6 production	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of interleukin-6 production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of mast cell activation involved in immune response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of mast cell activation involved in immune response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of peptidyl-tyrosine phosphorylation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of tumor necrosis factor production	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-tyrosine dephosphorylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in platelet aggregation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within platelet aggregation	ISO Inferred from Sequence Orthology more info
involved_in platelet formation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within platelet formation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell adhesion mediated by integrin	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of cell adhesion mediated by integrin	ISO Inferred from Sequence Orthology more info
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
involved_in regulation of B cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of B cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of ERK1 and ERK2 cascade	IEA Inferred from Electronic Annotation more info
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
involved_in regulation of release of sequestered calcium ion into cytosol	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of release of sequestered calcium ion into cytosol	ISO Inferred from Sequence Orthology more info
involved_in response to axon injury	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
part_of alpha-beta T cell receptor complex	IEA Inferred from Electronic Annotation more info
part_of alpha-beta T cell receptor complex	ISO Inferred from Sequence Orthology more info
located_in apical dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in cell-cell junction	IEA Inferred from Electronic Annotation more info
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology 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
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; protein-tyrosine phosphatase SHP-1

NP_446360.2

EC 3.1.3.48

XP_038962875.1

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_053908.2 → NP_446360.2 tyrosine-protein phosphatase non-receptor type 6

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

A6ILJ4, G3V9T9, Q499N7

Related

ENSRNOP00000059867.1, ENSRNOT00000065416.4

Conserved Domains (3) 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

cd14606
Location:255 → 520

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

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

NC_086022.1 Reference GRCr8

Range

159212320..159237069 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039106947.2 → XP_038962875.1 tyrosine-protein phosphatase non-receptor type 6 isoform X1

UniProtKB/TrEMBL

A0A0G2K064, A0A8I5ZT59, A6ILJ5

Related

ENSRNOP00000082194.1

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