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PTPRO protein tyrosine phosphatase receptor type O [ Homo sapiens (human) ]

Gene ID: 5800, updated on 12-Oct-2019

Summary

Official Symbol
PTPROprovided by HGNC
Official Full Name
protein tyrosine phosphatase receptor type Oprovided by HGNC
Primary source
HGNC:HGNC:9678
See related
Ensembl:ENSG00000151490 MIM:600579
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NPHS6; PTPU2; GLEPP1; PTP-OC; PTP-U2; PTPROT; R-PTP-O
Summary
This gene encodes a member of the R3 subtype family of receptor-type protein tyrosine phosphatases. These proteins are localized to the apical surface of polarized cells and may have tissue-specific functions through activation of Src family kinases. This gene contains two distinct promoters, and alternatively spliced transcript variants encoding multiple isoforms have been observed. The encoded proteins may have multiple isoform-specific and tissue-specific functions, including the regulation of osteoclast production and activity, inhibition of cell proliferation and facilitation of apoptosis. This gene is a candidate tumor suppressor, and decreased expression of this gene has been observed in several types of cancer. [provided by RefSeq, May 2011]
Expression
Biased expression in kidney (RPKM 3.7), brain (RPKM 2.7) and 11 other tissues See more
Orthologs

Genomic context

See PTPRO in Genome Data Viewer
Location:
12p12.3; 12p13-p12
Exon count:
28
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (15322334..15598331)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (15475191..15751265)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene RAS like estrogen regulated growth inhibitor Neighboring gene RERG antisense RNA 1 Neighboring gene methyltransferase like 8 pseudogene 1 Neighboring gene uncharacterized LOC105369673 Neighboring gene ribosomal protein S2 pseudogene 42 Neighboring gene uncharacterized LOC105369672 Neighboring gene HNF4 motif-containing MPRA enhancer 23 Neighboring gene epidermal growth factor receptor pathway substrate 8 Neighboring gene RNA, U6 small nuclear 251, pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Nephrotic syndrome, type 6
MedGen: C3280100 OMIM: 614196 GeneReviews: Not available
Compare labs

NHGRI GWAS Catalog

Description
Genome-wide study identifies PTPRO and WDR72 and FOXQ1-SUMO1P1 interaction associated with neurocognitive function.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 induces CD4 association with lymphocyte surface molecules CD3, CD11a, CD27, CD45RA, CD45RB, CD45RO, CD49d, CD38, CD26, CD59, CD95 and class I MHC molecules PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
Wnt-protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
cadherin binding IPI
Inferred from Physical Interaction
more info
PubMed 
phosphatase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity ISS
Inferred from Sequence or Structural Similarity
more info
 
protein tyrosine phosphatase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein tyrosine phosphatase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein tyrosine phosphatase activity TAS
Traceable Author Statement
more info
PubMed 
transmembrane receptor protein tyrosine phosphatase activity NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
 
cell morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
glomerular visceral epithelial cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
glomerulus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
lamellipodium assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
monocyte chemotaxis IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of canonical Wnt signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of cell-substrate adhesion ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of glomerular filtration ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of neuron projection development ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of retinal ganglion cell axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
 
peptidyl-tyrosine dephosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein dephosphorylation ISS
Inferred from Sequence or Structural Similarity
more info
 
protein dephosphorylation TAS
Traceable Author Statement
more info
PubMed 
regulation of glomerular filtration ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of synapse organization IEA
Inferred from Electronic Annotation
more info
 
slit diaphragm assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
slit diaphragm assembly NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
GABA-ergic synapse IEA
Inferred from Electronic Annotation
more info
 
apical plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
axon ISS
Inferred from Sequence or Structural Similarity
more info
 
dendritic spine ISS
Inferred from Sequence or Structural Similarity
more info
 
extracellular exosome HDA PubMed 
glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
growth cone ISS
Inferred from Sequence or Structural Similarity
more info
 
integral component of membrane TAS
Traceable Author Statement
more info
PubMed 
integral component of plasma membrane NAS
Non-traceable Author Statement
more info
PubMed 
integral component of postsynaptic density membrane IEA
Inferred from Electronic Annotation
more info
 
lamellipodium ISS
Inferred from Sequence or Structural Similarity
more info
 
lateral plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
neuron projection ISS
Inferred from Sequence or Structural Similarity
more info
 
plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
receptor-type tyrosine-protein phosphatase O
Names
PTP phi
PTPase U2
glomerular epithelial protein 1
osteoclastic transmembrane protein-tyrosine phosphatase
phosphotyrosine phosphatase U2
protein tyrosine phosphatase PTP-U2
NP_002839.1
NP_109592.1
NP_109593.1
NP_109594.1
NP_109595.1
NP_109596.1
XP_016875214.1

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_031857.1 RefSeqGene

    Range
    5252..281075
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_002848.4NP_002839.1  receptor-type tyrosine-protein phosphatase O isoform b precursor

    See identical proteins and their annotated locations for NP_002839.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an exon in the coding region but maintains the reading frame, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AC007542, DR000351, U20489
    Consensus CDS
    CCDS8674.1
    UniProtKB/Swiss-Prot
    Q16827
    Related
    ENSP00000343434.2, ENST00000348962.6
    Conserved Domains (4) summary
    smart00194
    Location:9091164
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:9371165
    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:434526
    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:725805
    fn3; Fibronectin type III domain
  2. NM_030667.3NP_109592.1  receptor-type tyrosine-protein phosphatase O isoform a precursor

    See identical proteins and their annotated locations for NP_109592.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AC007542, BC126201, DR000351
    Consensus CDS
    CCDS8675.1
    UniProtKB/Swiss-Prot
    Q16827
    Related
    ENSP00000281171.4, ENST00000281171.9
    Conserved Domains (3) summary
    cd00047
    Location:9651193
    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:530630
    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:435521
    fn3; Fibronectin type III domain
  3. NM_030668.3NP_109593.1  receptor-type tyrosine-protein phosphatase O isoform d

    See identical proteins and their annotated locations for NP_109593.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and has multiple differences in the coding region but maintains the reading frame, compared to variant 1. Variants 4 and 6 encode the same isoform (d), which is shorter than isoform a.
    Source sequence(s)
    AC007542, AF187044
    Consensus CDS
    CCDS53754.1
    UniProtKB/Swiss-Prot
    Q16827
    UniProtKB/TrEMBL
    A0A024RAS0
    Related
    ENSP00000437571.1, ENST00000542557.5
    Conserved Domains (1) summary
    cd00047
    Location:126354
    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 ...
  4. NM_030669.3NP_109594.1  receptor-type tyrosine-protein phosphatase O isoform c

    See identical proteins and their annotated locations for NP_109594.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. Variants 3 and 5 encode the same isoform (c), which has a shorter N-terminus compared to isoform a.
    Source sequence(s)
    AC007542, AF187043
    Consensus CDS
    CCDS44837.1
    UniProtKB/Swiss-Prot
    Q16827
    UniProtKB/TrEMBL
    A0A024RAS9
    Related
    ENSP00000404188.2, ENST00000442921.6
    Conserved Domains (1) summary
    cd00047
    Location:154382
    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 ...
  5. NM_030670.3NP_109595.1  receptor-type tyrosine-protein phosphatase O isoform d

    See identical proteins and their annotated locations for NP_109595.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and 3' UTR, and has multiple differences in the coding region but maintains the reading frame, compared to variant 1. Variants 4 and 6 encode the same isoform (d), which is shorter than isoform a.
    Source sequence(s)
    AC007542, AF187042
    Consensus CDS
    CCDS53754.1
    UniProtKB/Swiss-Prot
    Q16827
    UniProtKB/TrEMBL
    A0A024RAS0
    Related
    ENSP00000439234.1, ENST00000544244.5
    Conserved Domains (1) summary
    cd00047
    Location:126354
    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 ...
  6. NM_030671.3NP_109596.1  receptor-type tyrosine-protein phosphatase O isoform c

    See identical proteins and their annotated locations for NP_109596.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and 3' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. Variants 3 and 5 encode the same isoform (c), which has a shorter N-terminus compared to isoform a.
    Source sequence(s)
    AC007542, AF152378
    Consensus CDS
    CCDS44837.1
    UniProtKB/Swiss-Prot
    Q16827
    UniProtKB/TrEMBL
    A0A024RAS9
    Related
    ENSP00000393449.2, ENST00000445537.6
    Conserved Domains (1) summary
    cd00047
    Location:154382
    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 ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    15322334..15598331
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017019725.2XP_016875214.1  receptor-type tyrosine-protein phosphatase O isoform X1

RNA

  1. XR_931316.3 RNA Sequence

  2. XR_931318.2 RNA Sequence

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