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

Summary

Symbol: Ptprbprovided by RGD
Full Name: protein tyrosine phosphatase, receptor type, Bprovided by RGD
Primary source: RGD:1305922
See related: EnsemblRapid:ENSRNOG00000055293 AllianceGenome:RGD:1305922
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 cadherin binding activity. Involved in glial cell migration. Predicted to be located in membrane. Predicted to be part of receptor complex. Human ortholog(s) of this gene implicated in angiosarcoma; breast angiosarcoma; carcinoma (multiple); central nervous system cancer (multiple); and sarcoma. Orthologous to human PTPRB (protein tyrosine phosphatase receptor type B). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 804.8), Heart (RPKM 289.5) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q22

Exon count:: 36

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (53816197..53920760)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (51953375..52034751)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (59326484..59431114)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

molecular basis for the substrate recognition of Ptprz.
Title: Consensus substrate sequence for protein-tyrosine phosphatase receptor type Z.
both phosphacan and receptor protein tyrosine phosphatase beta splice variants participate in both the acute degenerative and long-term regenerative phases of reactive synaptogenesis
Title: Phosphacan and receptor protein tyrosine phosphatase β expression mediates deafferentation-induced synaptogenesis.
Thus, the present study demonstrates that two transmembranous RPTPzeta isoforms have different functions for regulating dendritogenesis and synaptogenesis.
Title: Functional difference of receptor-type protein tyrosine phosphatase zeta/beta isoforms in neurogenesis of hippocampal neurons.
Neurons are able to express receptor-type protein-tyrosine phosphatase beta (RPTPbeta)on their cellular surface; neuronal expression of RPTPbeta may modulate neuronal differentiation including neuritogenesis and synaptogenesis.
Title: Neuronal expression of the chondroitin sulfate proteoglycans receptor-type protein-tyrosine phosphatase beta and phosphacan.
Data suggest that the phosphacan short isoform PSI is expressed during the postnatal period in differentiated neurons of the cortex but is absent from structures in which proliferation and migration occur.
Title: Cortical neurons express PSI, a novel isoform of phosphacan/RPTPbeta.

Submit: New GeneRIF Correction

General gene information

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Markers

RH131513 (e-PCR)
- UniSTS:214796

RH128899 (e-PCR)
- UniSTS:212207

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cadherin binding	IBA Inferred from Biological aspect of Ancestor more info
enables cadherin 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	IEA Inferred from Electronic Annotation more info
enables protein tyrosine phosphatase activity, metal-dependent	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in angiogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in dephosphorylation	ISO Inferred from Sequence Orthology more info
involved_in glial cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in osteoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-tyrosine dephosphorylation involved in inactivation of protein kinase activity	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in membrane	IEA Inferred from Electronic Annotation more info
part_of receptor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of receptor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: receptor-type tyrosine-protein phosphatase beta

Names: protein tyrosine phosphatase, receptor type, B like 1

NP_001359063.1

EC 3.1.3.48

XP_063119552.1

EC 3.1.3.48

XP_063119553.1

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_001372134.2 → NP_001359063.1 receptor-type tyrosine-protein phosphatase beta isoform 1 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A0A8I5ZV35, A6IGM6, D3ZTG5

Related

ENSRNOP00000081477.1, ENSRNOT00000119174.2

Conserved Domains (4) summary

smart00060
Location:204 → 273

FN3; Fibronectin type 3 domain

cd14617
Location:1734 → 1961

R-PTPc-B; catalytic domain of receptor-type tyrosine-protein phosphatase B

pfam00041
Location:1263 → 1341

fn3; Fibronectin type III domain

pfam18861
Location:1460 → 1648

PTP_tm; Transmembrane domain of protein tyrosine phosphatase, receptor type J
NM_001429500.1 → NP_001416429.1 receptor-type tyrosine-protein phosphatase beta isoform 2 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A0A0G2K2W0, A0A8I5ZXS1

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_086025.1 Reference GRCr8

Range

53816197..53920760

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063263482.1 → XP_063119552.1 receptor-type tyrosine-protein phosphatase beta isoform X1

Related

ENSRNOP00000072398.3, ENSRNOT00000085231.3
XM_063263483.1 → XP_063119553.1 receptor-type tyrosine-protein phosphatase beta isoform X2

UniProtKB/TrEMBL

A6IGM7, D3ZTG5

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001108095.1: Suppressed sequence

Description

NM_001108095.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: PTPRB (GeneID:5787).