PTPN20B Gene
protein-coding GIFtS: 41
GCID: GC10M048738
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|
protein tyrosine phosphatase, non-receptor type 20B
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Aliases
for PTPN20B gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Protein Tyrosine Phosphatase, Non-Receptor Type 20B1 2 | | BA42B19.11 | | EC 3.1.3.483 8 | | DKFZP566K05241 | | Protein Tyrosine Phosphatase, Non-Receptor Type 202 | | HPTPN201 |
Export aliases for PTPN20B gene to outside databasesPrevious GC identifers: GC10U900463 GC10M048360 GC10M043590 |
Summaries
for PTPN20B gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for PTPN20B:
The product of this gene belongs to the family of classical tyrosine-specific protein tyrosine phosphatases. Manyprotein tyrosine phosphatases have been shown to regulate fundamental cellular processes and several are mutated inhuman diseases. Chromosome 10q contains a segmental duplication resulting in multiple copies of the protein tyrosinephosphatase, non-receptor type 20 gene. The two nearly identical copies are designated as PTPN20A and PTPN20B. A thirdcopy is only partially duplicated and contains a pseudogene, designated as PTPN20C. This gene encodes the moretelomeric copy, PTPN20B. Multiple alternatively spliced transcript variants encoding different isoforms have beenidentified. (provided by RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: PTN20_HUMAN, Q4JDL3Function: Tyrosine-protein phosphatase targeted to sites of actin polymerization in response of varied extracellularstimuli. Has tyrosine phosphatase activity towards various tyrosyl phosphorylated substrates
|
Genomic Views
for PTPN20B gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000010.10 NC_018921.1 NT_030772.10
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the PTPN20B gene promoter:
MEF-2A GR AML1a FOXC1 MEF-2 aMEF-2 GR-alpha FOXL1
Other transcription factors
Search SABiosciences Chromatin IP Primers for PTPN20B
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PTPN20B |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 10q11.22 Ensembl cytogenetic band: 10q11.22 HGNC cytogenetic band: 10q11.22PTPN20B Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 10 GeneLoc Exon Structure GeneLoc location for GC10M048738: view genomic region
(about GC identifiers)
Start:
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48,736,874 bp from pter |
End:
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48,827,966 bp from pter |
Size:
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91,093 bases |
Orientation:
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minus strand |
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Proteins
for PTPN20B gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: PTN20_HUMAN, Q4JDL3 (See
protein sequence)Recommended Name: Tyrosine-protein phosphatase non-receptor type 20 Size: 420 amino acids; 48423 Da
Subcellular location: Nucleus. Cytoplasm. Cytoplasm, cytoskeleton, centrosome. Note=Colocalizes with themicrotubule-organizing center and intracellular membrane compartments
Sequence caution: Sequence=AAW28797.1; Type=Erroneous translation; Note=Wrong choice of frame;
Secondary accessions: A6NNH8 B7ZKV3 Q4JDG6 Q4JDK1 Q4JDK5 Q4JDK6 Q4JDK8 Q4JDK9 Q4JDL0 Q4JDL1 Q4JDL4Q4JDL5 Q4JDL6 Q4JDL7 Q4JDL8 Q5RJ33 Q5T1G3Alternative splicing: 15 isoforms: Q4JDL3-1 Q4JDL3-2 Q4JDL3-3 Q4JDL3-4 Q4JDL3-5 Q4JDL3-6 Q4JDL3-7 Q4JDL3-8 Q4JDL3-9 Q4JDL3-10 Q4JDL3-11 Q4JDL3-12 Q4JDL3-13 Q4JDL3-14 Q4JDL3-15 (May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay)Explore the universe of human proteins at neXtProt for PTPN20B: NX_Q4JDL3
Post-translational modifications:
Phosphorylated upon DNA damage, probably by ATM or ATR1
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q4JDL3
4 DME Specific Peptides for PTPN20B (Q4JDL3)
PTPN20B Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (10 alternative transcripts):
NP_001035816.1 NP_001035817.1 NP_001035818.1 NP_001035819.1 NP_001035820.1 NP_001035821.1 NP_001035822.1 NP_001035823.1 NP_001035824.1 NP_056420.3
ENSEMBL proteins: ENSP00000331832 ENSP00000363357 ENSP00000363350 ENSP00000425723 ENSP00000423839 ENSP00000427171 ENSP00000422953 ENSP00000424942 ENSP00000421604 ENSP00000424344 ENSP00000423545 ENSP00000421999 ENSP00000425285 ENSP00000426298 ENSP00000424728 ENSP00000379033 ENSP00000427588 ENSP00000406097 ENSP00000426605 ENSP00000427081 ENSP00000379020 ENSP00000363352 ENSP00000379021 ENSP00000379027 ENSP00000379022
Human Recombinant Protein Products:
Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view): About this table
PTPN20B for ontologies About GeneDecksing
PTPN20B Antibody Products:
Assay Products for PTPN20B: |
Protein
Domains /
Families
for PTPN20B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
PTPN20B for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q4JDL3ProtoNet protein and cluster: Q4JDL3 1 Blocks protein family: IPB000242 Protein tyrosine phosphatase signature
UniProtKB/Swiss-Prot: PTN20_HUMAN, Q4JDL3Similarity: Belongs to the protein-tyrosine phosphatase family. Non-receptor class subfamilySimilarity: Contains 1 tyrosine-protein phosphatase domain |
Function
for PTPN20B gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: PTN20_HUMAN, Q4JDL3Function: Tyrosine-protein phosphatase targeted to sites of actin polymerization in response of varied extracellularstimuli. Has tyrosine phosphatase activity towards various tyrosyl phosphorylated substratesCatalytic activity: Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphateEnzyme Number (IUBMB): EC 3.1.3.481 2
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for PTPN20B (see all 11)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PTPN20B |
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0004725 | protein tyrosine phosphatase activity |
-- | -- | | GO:0004872 | receptor activity |
-- | -- |
PTPN20B for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for PTPN20B:
Animal Models:
1 MGI phenotypic allele  for Ptpn20 (no phenotypes)
PTPN20B for phenotypes About GeneDecksing
|
Pathways & Interactions
for PTPN20B gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for PTPN20B
|
Drugs & Compounds
for PTPN20B gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for PTPN20B
Search CenterWatch for drugs/clinical trials and news about PTPN20B / PTN20
|
Transcripts
for PTPN20B gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for PTPN20B gene (10 alternative transcripts): NM_001042357.3 NM_001042358.3 NM_001042359.2 NM_001042360.2 NM_001042361.3 NM_001042362.2 NM_001042363.3 NM_001042364.3 NM_001042365.2 NM_015605.7 Unigene Cluster for PTPN20B: Protein tyrosine phosphatase, non-receptor type 20B Hs.499552 [show with all ESTs]Unigene Representative Sequence: NM_00104235718/32 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 32): ENST00000374237(uc001jfn.1) ENST00000331650(uc001jfh.1 uc001jfj.1 uc009xnr.1 uc001jfs.1)
ENST00000509544(uc001jfo.1 uc001jft.1) ENST00000504747(uc001jfx.1)
ENST00000374240(uc001jfc.1 uc001jfk.1 uc001jfp.1 uc001jfw.1)
ENST00000374233 ENST00000507417 ENST00000514592 ENST00000513933 ENST00000505714
ENST00000515532 ENST00000507329 ENST00000514491 ENST00000509230 ENST00000509631
ENST00000510840 ENST00000512924 ENST00000509753
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for PTPN20B (see all 11)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for PTPN20B (see all 11)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 10): PTPN20B (NM_001042358) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for PTPN20B | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PTPN20B |
6 DOTS entries: DT.121285666 DT.40297888 DT.100745172 DT.121285649 DT.121285652 DT.121289137 21 AceView cDNA sequences: AW074840 BQ008756 NM_015605 BU567804 BQ786761 BG121935 CA778018 AL050040 BC036539 BI547503 AW241948 CD108815 BX648913 BG220714 BG655503 AA443172 BI460524 BG655441 D62174 R58088 AW868331
GeneLoc Exon Structure
|
Expression
for PTPN20B gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| PTPN20B expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See PTPN20B Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for PTPN20B
SOURCE GeneReport for Unigene cluster: Hs.499552
UniProtKB/Swiss-Prot: PTN20_HUMAN, Q4JDL3Tissue specificity: Present in many cell lines (at protein level). Widely expressed
SABiosciences Custom PCR Arrays for PTPN20B
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for PTPN20B
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat PTPN20B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PTPN20B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PTPN20B | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PTPN20B |
Orthologs
for PTPN20B gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for PTPN20B gene from 3/13 species (see all 13) About this table
ENSEMBL Gene Tree for PTPN20B (if available)
TreeFam Gene Tree for PTPN20B (if available) |
Paralogs
for PTPN20B gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for PTPN20B gene
- PTPN20A1 2 PTPN12 PTPN32 PTPN20C2 FRMPD22 PTPN42 PTPN132 PTPN92
- PTPN142 PTPN212 PTPN22
18/32 SIMAP similar genes for PTPN20B using alignment to 2 protein entries: PTN20_HUMAN (see all proteins)
(see all similar genes):DKFZp566K0524 PTPN20A DKFZp781P23155 PTPN20 PTPRR DKFZp686B1310
LAR PTPRF PTPsigma PTPN13 PTPN2 PTPRD
PTPRS DKFZp686E13109 PTPRB DKFZp686N0569 PTPN3 PTPRG
PTPN20B for paralogs About GeneDecksing
|
Genomic Variants
for PTPN20B gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 10 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for PTPN20B (48736874 - 48827966 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 21 variations for PTPN20B
15/20 CNVs (see all 20): 9150 8652 48536 3798 65654 4691 34456 48538 48539 30486 65652 3799 48537 8651 31728
1 Indel: 33523 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing PTPN20B |
|
Disorders
/ Diseases
for PTPN20B gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
 PTPN20B for disorders About MalaCards
PTPN20B for disorders About GeneDecksing
OMIM gene information: 610631
OMIM disorders: --
Export disorders for PTPN20B gene to outside databases
|
Publications
for PTPN20B gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for PTPN20B gene integrated from 9 sources:
(articles sorted by number of sources associating them with PTPN20B) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Protein tyrosine phosphatase hPTPN20a is targeted to sites of actin polymerization. (PubMed id 15790311)1, 2, 3 Fodero-Tavoletti M.T.... Tiganis T. (2005)
- The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)2 Deloukas P.... Rogers J. (2004)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for PTPN20B gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing PTPN20B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing PTPN20B gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing PTPN20B gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for PTPN20B | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for PTPN20B gene:
Search GeneIP for patents involving PTPN20B
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for PTPN20B gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PTPN20B |
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