Ptpru protein tyrosine phosphatase, receptor type, U [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ptpruprovided by RGD
Official Full Name: protein tyrosine phosphatase, receptor type, Uprovided by RGD
Primary source: RGD:620782
See related: EnsemblRapid:ENSRNOG00000013515 AllianceGenome:RGD:620782
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
Summary: Predicted to enable beta-catenin binding activity and protein tyrosine phosphatase activity. Involved in animal organ regeneration and response to glucocorticoid. Predicted to be located in cell-cell junction. Biomarker of membranous glomerulonephritis and nephrosis. Orthologous to human PTPRU (protein tyrosine phosphatase receptor type U). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Uterus (RPKM 40.5), Kidney (RPKM 36.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 36

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (149234624..149308857, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (143950542..144024791, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (149922374..149996352, complement)

Chromosome 5 - NC_086023.1 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: 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?

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General gene information

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Markers

RH134910 (e-PCR)
- UniSTS:218188

AW535311 (e-PCR)
- UniSTS:247215

Ptpru (e-PCR), detects polymorphism
- UniSTS:527079

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables beta-catenin binding	ISO Inferred from Sequence Orthology more info
enables histone H2AXY142 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables non-membrane spanning protein tyrosine 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	ISO Inferred from Sequence Orthology more info
enables protein tyrosine phosphatase activity, metal-dependent	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in animal organ regeneration	IEP Inferred from Expression Pattern more info	PubMed
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within homotypic cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in neuron differentiation	NAS Non-traceable Author Statement more info	PubMed
involved_in neuron projection development	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell-cell adhesion mediated by cadherin	ISO Inferred from Sequence Orthology more info
involved_in protein dephosphorylation	ISO Inferred from Sequence Orthology more info
involved_in protein localization to cell surface	ISO Inferred from Sequence Orthology more info
involved_in response to glucocorticoid	IEP Inferred from Expression Pattern more info	PubMed
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: receptor-type tyrosine-protein phosphatase U

Names: R-ptp-psi

NP_001178504.1

EC 3.1.3.48

NP_001401978.1

EC 3.1.3.48

XP_006239060.1

EC 3.1.3.48

XP_008762352.1

EC 3.1.3.48

XP_017448609.1

EC 3.1.3.48

XP_017448610.1

EC 3.1.3.48

XP_017448611.1

EC 3.1.3.48

XP_038965082.1

EC 3.1.3.48

XP_038965083.1

EC 3.1.3.48

XP_038965084.1

EC 3.1.3.48

XP_063143141.1

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_001191575.2 → NP_001178504.1 receptor-type tyrosine-protein phosphatase U isoform 1 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/TrEMBL

A0A0G2K3H0

Conserved Domains (5) summary

smart00137
Location:22 → 186

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

cd00063
Location:386 → 481

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd14637
Location:1232 → 1438

R-PTPc-U-2; PTP domain of receptor-type tyrosine-protein phosphatase U, repeat 2

pfam00041
Location:494 → 577

fn3; Fibronectin type III domain

cl28904
Location:943 → 1147

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
NM_001415049.1 → NP_001401978.1 receptor-type tyrosine-protein phosphatase U isoform 2 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

Related

ENSRNOP00000104366.1, ENSRNOT00000158638.1

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_086023.1 Reference GRCr8

Range

149234624..149308857 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039109155.2 → XP_038965083.1 receptor-type tyrosine-protein phosphatase U isoform X4

UniProtKB/TrEMBL

A0A0G2K3H0

Conserved Domains (5) summary

smart00137
Location:22 → 186

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

cd00063
Location:386 → 481

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd14637
Location:1229 → 1435

R-PTPc-U-2; PTP domain of receptor-type tyrosine-protein phosphatase U, repeat 2

pfam00041
Location:494 → 577

fn3; Fibronectin type III domain

cl28904
Location:943 → 1144

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_017593121.3 → XP_017448610.1 receptor-type tyrosine-protein phosphatase U isoform X2

UniProtKB/TrEMBL

A0A0G2K3H0
XM_039109156.2 → XP_038965084.1 receptor-type tyrosine-protein phosphatase U isoform X7

UniProtKB/TrEMBL

A0A0G2K3H0

Conserved Domains (4) summary

smart00137
Location:22 → 186

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

cd00063
Location:386 → 481

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:494 → 577

fn3; Fibronectin type III domain

cl28904
Location:943 → 1153

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_017593120.3 → XP_017448609.1 receptor-type tyrosine-protein phosphatase U isoform X1

UniProtKB/TrEMBL

A0A0G2K3H0

Related

ENSRNOP00000030956.5, ENSRNOT00000036148.6
XM_006238998.4 → XP_006239060.1 receptor-type tyrosine-protein phosphatase U isoform X6

UniProtKB/TrEMBL

A0A0G2K3H0

Conserved Domains (7) summary

cd06263
Location:27 → 186

MAM; Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members ...

smart00137
Location:22 → 186

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

smart00194
Location:1162 → 1425

PTPc; Protein tyrosine phosphatase, catalytic domain

cd00047
Location:912 → 1130

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 ...

cd00063
Location:484 → 585

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:291 → 366

fn3; Fibronectin type III domain

pfam00102
Location:908 → 1130

Y_phosphatase; Protein-tyrosine phosphatase
XM_017593122.3 → XP_017448611.1 receptor-type tyrosine-protein phosphatase U isoform X5

UniProtKB/TrEMBL

A0A0G2K3H0
XM_063287071.1 → XP_063143141.1 receptor-type tyrosine-protein phosphatase U isoform X8
XM_039109154.2 → XP_038965082.1 receptor-type tyrosine-protein phosphatase U isoform X3

UniProtKB/TrEMBL

A0A0G2K3H0

Conserved Domains (5) summary

smart00137
Location:20 → 180

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

cd00063
Location:380 → 475

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd14637
Location:1232 → 1438

R-PTPc-U-2; PTP domain of receptor-type tyrosine-protein phosphatase U, repeat 2

pfam00041
Location:488 → 571

fn3; Fibronectin type III domain

cl28904
Location:937 → 1147

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_008764130.4 → XP_008762352.1 receptor-type tyrosine-protein phosphatase U isoform X9

Conserved Domains (5) summary

cd06263
Location:27 → 186

MAM; Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members ...

smart00137
Location:22 → 186

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

smart00410
Location:196 → 282

IG_like; Immunoglobulin like

cd00063
Location:484 → 585

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:291 → 366

fn3; Fibronectin type III domain