Human Gene PTPRG (uc003dlb.3)
  Description: Homo sapiens protein tyrosine phosphatase, receptor type, G (PTPRG), mRNA.
RefSeq Summary (NM_002841): The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. PTPs are known to be signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. This PTP possesses an extracellular region, a single transmembrane region, and two tandem intracytoplasmic catalytic domains, and thus represents a receptor-type PTP. The extracellular region of this PTP contains a carbonic anhydrase-like (CAH) domain, which is also found in the extracellular region of PTPRBETA/ZETA. This gene is located in a chromosomal region that is frequently deleted in renal cell carcinoma and lung carcinoma, thus is thought to be a candidate tumor suppressor gene. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr3:61,547,243-62,280,573 Size: 733,331 Total Exon Count: 30 Strand: +
Coding Region
   Position: hg19 chr3:61,547,962-62,278,982 Size: 731,021 Coding Exon Count: 30 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:61,547,243-62,280,573)mRNA (may differ from genome)Protein (1445 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMalacards
MGIneXtProtOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PTPRG_HUMAN
DESCRIPTION: RecName: Full=Receptor-type tyrosine-protein phosphatase gamma; Short=Protein-tyrosine phosphatase gamma; Short=R-PTP-gamma; EC=3.1.3.48; Flags: Precursor;
FUNCTION: Possesses tyrosine phosphatase activity.
CATALYTIC ACTIVITY: Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate.
SUBUNIT: Monomer; active form. Homodimer; inactive form (Probable).
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (Probable).
TISSUE SPECIFICITY: Found in a variety of tissues.
SIMILARITY: Belongs to the protein-tyrosine phosphatase family. Receptor class 5 subfamily.
SIMILARITY: Contains 1 alpha-carbonic anhydrase domain.
SIMILARITY: Contains 1 fibronectin type-III domain.
SIMILARITY: Contains 2 tyrosine-protein phosphatase domains.
SEQUENCE CAUTION: Sequence=BAD93108.1; Type=Erroneous initiation;
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/PTPRGID41930ch3p21.html";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): PTPRG
CDC HuGE Published Literature: PTPRG
Positive Disease Associations: Cell Adhesion Molecules , Coronary Artery Disease , Diabetes Mellitus, Type 2 , Fuchs Endothelial Dystrophy , Glucose , Heart Rate , Hip , Inflammation , Lipids , major depressive disorder , QT interval , Schizophrenia , Waist Circumference
Related Studies:
  1. Cell Adhesion Molecules
    , , . [PubMed 0]
  2. Coronary Artery Disease
    , , . [PubMed 0]
  3. Diabetes Mellitus, Type 2
    Laura J Scott et al. Science (New York, N.Y.) 2007, A genome-wide association study of type 2 diabetes in Finns detects multiple susceptibility variants., Science (New York, N.Y.). [PubMed 17463248]
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: PTPRG
Diseases sorted by gene-association score: infantile myofibromatosis (9), corneal fleck dystrophy (7), renal cell carcinoma (2), fuchs' endothelial dystrophy (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.07 RPKM in Artery - Tibial
Total median expression: 215.53 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -316.20719-0.440 Picture PostScript Text
3' UTR -380.211591-0.239 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001148 - Carbonic_anhydrase_a
IPR003961 - Fibronectin_type3
IPR013783 - Ig-like_fold
IPR000387 - Tyr/Dual-specificity_Pase
IPR016130 - Tyr_Pase_AS
IPR000242 - Tyr_Pase_rcpt/non-rcpt

Pfam Domains:
PF00041 - Fibronectin type III domain
PF00102 - Protein-tyrosine phosphatase
PF00194 - Eukaryotic-type carbonic anhydrase

SCOP Domains:
49265 - Fibronectin type III
51069 - Carbonic anhydrase
52799 - (Phosphotyrosine protein) phosphatases II

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2H4V - X-ray MuPIT 2HY3 - X-ray MuPIT 2NLK - X-ray MuPIT 2PBN - X-ray MuPIT 3JXH - X-ray MuPIT 3QCB - X-ray MuPIT 3QCC - X-ray MuPIT 3QCD - X-ray MuPIT 3QCE - X-ray MuPIT 3QCF - X-ray MuPIT 3QCG - X-ray MuPIT 3QCH - X-ray MuPIT 3QCI - X-ray MuPIT 3QCJ - X-ray MuPIT 3QCK - X-ray MuPIT 3QCL - X-ray MuPIT 3QCM - X-ray MuPIT 3QCN - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P23470
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004721 phosphoprotein phosphatase activity
GO:0004725 protein tyrosine phosphatase activity
GO:0005001 transmembrane receptor protein tyrosine phosphatase activity
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity
GO:0042802 identical protein binding

Biological Process:
GO:0006470 protein dephosphorylation
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway
GO:0007420 brain development
GO:0010633 negative regulation of epithelial cell migration
GO:0010977 negative regulation of neuron projection development
GO:0016311 dephosphorylation
GO:0035335 peptidyl-tyrosine dephosphorylation
GO:1903385 regulation of homophilic cell adhesion

Cellular Component:
GO:0005615 extracellular space
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC140904 - Homo sapiens protein tyrosine phosphatase, receptor type, G, mRNA (cDNA clone MGC:176581 IMAGE:9056716), complete cds.
BC144110 - Homo sapiens protein tyrosine phosphatase, receptor type, G, mRNA (cDNA clone MGC:177647 IMAGE:9052630), complete cds.
AB209871 - Homo sapiens mRNA for protein tyrosine phosphatase, receptor type, G precursor variant protein.
L09247 - Human receptor-type protein tyrosine phosphatase gamma (PTPRG) mRNA, complete cds.
AB385117 - Synthetic construct DNA, clone: pF1KB5544, Homo sapiens PTPRG gene for protein tyrosine phosphatase, receptor type, G, complete cds, without stop codon, in Flexi system.
BC036018 - Homo sapiens protein tyrosine phosphatase, receptor type, G, mRNA (cDNA clone IMAGE:5278250), complete cds.
BC048961 - Homo sapiens protein tyrosine phosphatase, receptor type, G, mRNA (cDNA clone IMAGE:5301008), complete cds.
BC047734 - Homo sapiens protein tyrosine phosphatase, receptor type, G, mRNA (cDNA clone IMAGE:6188881), complete cds.
CR749269 - Homo sapiens mRNA; cDNA DKFZp686K04137 (from clone DKFZp686K04137).
AK296327 - Homo sapiens cDNA FLJ50782 complete cds, highly similar to Receptor-type tyrosine-protein phosphatase gamma precursor (EC 3.1.3.48).
X54132 - Human HPTP gamma mRNA for protein tyrosine phosphatase gamma.
JD373001 - Sequence 354025 from Patent EP1572962.
JD464361 - Sequence 445385 from Patent EP1572962.
JD399750 - Sequence 380774 from Patent EP1572962.
JD418436 - Sequence 399460 from Patent EP1572962.
JD127102 - Sequence 108126 from Patent EP1572962.
JD395944 - Sequence 376968 from Patent EP1572962.
JD458456 - Sequence 439480 from Patent EP1572962.
JD152400 - Sequence 133424 from Patent EP1572962.
JD461571 - Sequence 442595 from Patent EP1572962.
JD049876 - Sequence 30900 from Patent EP1572962.
EU273472 - Homo sapiens receptor type protein tyrosine phosphatase gamma mRNA, partial cds.
JD358858 - Sequence 339882 from Patent EP1572962.
JD429642 - Sequence 410666 from Patent EP1572962.
JD264087 - Sequence 245111 from Patent EP1572962.
JD474190 - Sequence 455214 from Patent EP1572962.
JD496796 - Sequence 477820 from Patent EP1572962.
JD501862 - Sequence 482886 from Patent EP1572962.
JD303856 - Sequence 284880 from Patent EP1572962.
JD500203 - Sequence 481227 from Patent EP1572962.
JD043583 - Sequence 24607 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RU12, NM_002841, NP_002832, P23470, PTPG, PTPRG_HUMAN, Q15623, Q59EE0, Q68DU5
UCSC ID: uc003dlb.3
RefSeq Accession: NM_002841
Protein: P23470 (aka PTPRG_HUMAN)
CCDS: CCDS2895.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_002841.3
exon count: 30CDS single in 3' UTR: no RNA size: 6648
ORF size: 4338CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 6690.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.