PTPN1 (protein tyrosine phosphatase non-receptor type 1) - Rat Genome Database
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Gene: PTPN1 (protein tyrosine phosphatase non-receptor type 1) Homo sapiens
Analyze
Symbol: PTPN1
Name: protein tyrosine phosphatase non-receptor type 1
RGD ID: 1343639
HGNC Page HGNC
Description: Exhibits protein tyrosine phosphatase activity; signaling receptor binding activity; and zinc ion binding activity. Involved in several processes, including actin cytoskeleton reorganization; positive regulation of cellular metabolic process; and regulation of signal transduction. Localizes to several cellular components, including cytoplasmic side of endoplasmic reticulum membrane; early endosome; and endoplasmic reticulum. Colocalizes with plasma membrane. Implicated in type 2 diabetes mellitus.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: protein tyrosine phosphatase 1B; protein tyrosine phosphatase, placental; protein-tyrosine phosphatase 1B; PTP1B; tyrosine-protein phosphatase non-receptor type 1
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2050,510,321 - 50,585,241 (+)EnsemblGRCh38hg38GRCh38
GRCh382050,510,383 - 50,585,241 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372049,126,858 - 49,201,299 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362048,560,298 - 48,634,495 (+)NCBINCBI36hg18NCBI36
Build 342048,560,297 - 48,634,491NCBI
Celera2045,831,156 - 45,905,376 (+)NCBI
Cytogenetic Map20q13.13NCBI
HuRef2045,875,585 - 45,950,061 (+)NCBIHuRef
CHM1_12049,031,996 - 49,106,433 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (EXP)
1,2-dimethylhydrazine  (ISO)
1,2-naphthoquinone  (EXP)
1,4-dithiothreitol  (EXP,ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dinitrotoluene  (ISO)
2,6-dinitrotoluene  (ISO)
2-methylcholine  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-hydroxynon-2-enal  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-nitrophenyl phosphate  (EXP)
9,10-phenanthroquinone  (EXP)
acetamide  (ISO)
acrolein  (EXP)
ADP  (ISO)
aflatoxin B1  (EXP)
aflatoxin B2  (EXP)
ammonium chloride  (ISO)
anthranilic acid  (EXP)
antirheumatic drug  (EXP)
arsenous acid  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (EXP)
benzoic acid  (EXP)
bisphenol A  (ISO)
calcitriol  (EXP)
carbon nanotube  (ISO)
chlordecone  (ISO)
chloropicrin  (EXP)
chromium atom  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
coumestrol  (EXP)
Cryptotanshinone  (EXP)
decabromodiphenyl ether  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (EXP)
dibutyl phthalate  (ISO)
diclofenac  (ISO)
dimethylarsinous acid  (EXP)
disodium selenite  (EXP,ISO)
elemental selenium  (ISO)
ethanol  (ISO)
flavonoids  (ISO)
folic acid  (ISO)
fucosterol  (EXP)
genistein  (ISO)
glycidol  (ISO)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
isoliquiritigenin  (ISO)
L-1,4-dithiothreitol  (EXP,ISO)
lipopolysaccharide  (ISO)
LY294002  (EXP)
metformin  (EXP)
methylglyoxal  (EXP)
methylmercury chloride  (EXP)
morin  (EXP)
N-acetyl-L-cysteine  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
N-nitrosodiethylamine  (ISO)
paracetamol  (ISO)
phenethyl caffeate  (ISO)
pirinixic acid  (ISO)
pyrithione  (ISO)
resveratrol  (EXP,ISO)
rotenone  (EXP)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
selenic acid  (EXP,ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
streptozocin  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (ISO)
tetrathiomolybdate(2-)  (EXP)
thapsigargin  (ISO)
thiazolidines  (EXP)
tris(picolinato)chromium  (ISO)
tunicamycin  (EXP,ISO)
ursolic acid  (EXP)
valproic acid  (EXP,ISO)
vanadyl sulfate  (EXP)
vinclozolin  (ISO)
vorinostat  (EXP)
zinc atom  (EXP,ISO)
zinc sulfate  (EXP)
zinc(0)  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin cytoskeleton reorganization  (IMP)
activation of JUN kinase activity  (IEA)
cellular response to unfolded protein  (TAS)
endoplasmic reticulum unfolded protein response  (IDA)
growth hormone receptor signaling pathway via JAK-STAT  (TAS)
insulin receptor signaling pathway  (IEA)
IRE1-mediated unfolded protein response  (IEA)
negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  (IEA)
negative regulation of ERK1 and ERK2 cascade  (ISS)
negative regulation of insulin receptor signaling pathway  (NAS)
negative regulation of MAP kinase activity  (IMP)
negative regulation of PERK-mediated unfolded protein response  (IDA)
negative regulation of signal transduction  (TAS)
negative regulation of vascular endothelial growth factor receptor signaling pathway  (ISS)
peptidyl-tyrosine dephosphorylation  (IDA,IEA,IMP)
peptidyl-tyrosine dephosphorylation involved in inactivation of protein kinase activity  (ISS)
platelet-derived growth factor receptor-beta signaling pathway  (IMP)
positive regulation of IRE1-mediated unfolded protein response  (TAS)
positive regulation of protein tyrosine kinase activity  (IDA)
positive regulation of receptor catabolic process  (IMP)
protein dephosphorylation  (IMP)
regulation of endocytosis  (IDA)
regulation of hepatocyte growth factor receptor signaling pathway  (IMP)
regulation of insulin receptor signaling pathway  (ISO)
regulation of intracellular protein transport  (IMP)
regulation of signal transduction  (IMP)
regulation of type I interferon-mediated signaling pathway  (TAS)
response to endoplasmic reticulum stress  (ISO)

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
References

Additional References at PubMed
PMID:1739967   PMID:2157211   PMID:2164224   PMID:2546149   PMID:7510677   PMID:7514173   PMID:7539106   PMID:7540771   PMID:7544790   PMID:7545675   PMID:7693694   PMID:7935344  
PMID:8128219   PMID:8389479   PMID:8491187   PMID:8621392   PMID:8647855   PMID:8702689   PMID:8826975   PMID:8940099   PMID:8940134   PMID:8999839   PMID:9050838   PMID:9261115  
PMID:9355745   PMID:9391040   PMID:9407132   PMID:9418872   PMID:9499405   PMID:9553104   PMID:9566916   PMID:9600099   PMID:9922143   PMID:10350489   PMID:10480872   PMID:10660596  
PMID:10748206   PMID:10889023   PMID:10940933   PMID:11007774   PMID:11106648   PMID:11136729   PMID:11163213   PMID:11316810   PMID:11506178   PMID:11579209   PMID:11694501   PMID:11703427  
PMID:11726652   PMID:11742412   PMID:11756316   PMID:11780052   PMID:11788587   PMID:11836311   PMID:11970898   PMID:12023880   PMID:12082107   PMID:12176037   PMID:12237455   PMID:12354677  
PMID:12365558   PMID:12377785   PMID:12388170   PMID:12414790   PMID:12424235   PMID:12446583   PMID:12468645   PMID:12477932   PMID:12504077   PMID:12547827   PMID:12554649   PMID:12573287  
PMID:12614164   PMID:12634852   PMID:12802338   PMID:12802339   PMID:12857726   PMID:12907755   PMID:14514610   PMID:14527337   PMID:14722096   PMID:14966296   PMID:14976221   PMID:15031294  
PMID:15039022   PMID:15097232   PMID:15189365   PMID:15235769   PMID:15258570   PMID:15489334   PMID:15504984   PMID:15504985   PMID:15588985   PMID:15588987   PMID:15592455   PMID:15715684  
PMID:15737620   PMID:15866871   PMID:15894168   PMID:15919813   PMID:15919835   PMID:15976035   PMID:15998263   PMID:16005629   PMID:16115959   PMID:16249458   PMID:16271887   PMID:16289152  
PMID:16291744   PMID:16344560   PMID:16388599   PMID:16407290   PMID:16505227   PMID:16537444   PMID:16582879   PMID:16644720   PMID:16652382   PMID:16677372   PMID:16713994   PMID:16926280  
PMID:17056636   PMID:17081112   PMID:17081983   PMID:17092689   PMID:17128263   PMID:17135270   PMID:17159996   PMID:17185494   PMID:17197020   PMID:17240976   PMID:17255364   PMID:17333110  
PMID:17339316   PMID:17403124   PMID:17416557   PMID:17481567   PMID:17509747   PMID:17560463   PMID:17634210   PMID:17643420   PMID:17974954   PMID:18029348   PMID:18074158   PMID:18077048  
PMID:18253097   PMID:18332219   PMID:18387954   PMID:18515860   PMID:18571728   PMID:18579758   PMID:18636124   PMID:18660489   PMID:18716132   PMID:18819921   PMID:18840608   PMID:18846048  
PMID:18854601   PMID:18925540   PMID:18957266   PMID:19008309   PMID:19029027   PMID:19167335   PMID:19208619   PMID:19435911   PMID:19490893   PMID:19491387   PMID:19578796   PMID:19589142  
PMID:19712109   PMID:19782770   PMID:19948975   PMID:20000419   PMID:20030748   PMID:20059965   PMID:20101100   PMID:20118922   PMID:20131294   PMID:20177231   PMID:20236928   PMID:20388125  
PMID:20416077   PMID:20493809   PMID:20504764   PMID:20578946   PMID:20601126   PMID:20615878   PMID:20627780   PMID:20628624   PMID:20682687   PMID:20864346   PMID:20871154   PMID:20937240  
PMID:20952588   PMID:21123182   PMID:21135139   PMID:21188419   PMID:21216966   PMID:21411736   PMID:21442314   PMID:21487008   PMID:21513978   PMID:21632985   PMID:21676396   PMID:21707536  
PMID:21795709   PMID:21806020   PMID:21849469   PMID:21869483   PMID:21913686   PMID:21959757   PMID:21972092   PMID:21988832   PMID:22013210   PMID:22031842   PMID:22045810   PMID:22169477  
PMID:22282656   PMID:22304920   PMID:22404968   PMID:22450318   PMID:22474028   PMID:22509299   PMID:22609202   PMID:22655028   PMID:22658674   PMID:22698963   PMID:22701734   PMID:22789536  
PMID:22810586   PMID:22939629   PMID:23129613   PMID:23176256   PMID:23239271   PMID:23358729   PMID:23428800   PMID:23439647   PMID:23499906   PMID:23590304   PMID:23640882   PMID:23661004  
PMID:23729600   PMID:23761422   PMID:23769735   PMID:23814025   PMID:23814047   PMID:23990346   PMID:23994026   PMID:24003221   PMID:24104540   PMID:24114941   PMID:24120971   PMID:24139759  
PMID:24239742   PMID:24285539   PMID:24393526   PMID:24465712   PMID:24519936   PMID:24531327   PMID:24590766   PMID:24625984   PMID:24658140   PMID:24706663   PMID:24715221   PMID:24809452  
PMID:24831294   PMID:24865376   PMID:24976139   PMID:24982127   PMID:25204659   PMID:25263014   PMID:25288805   PMID:25311528   PMID:25398386   PMID:25402006   PMID:25450460   PMID:25468996  
PMID:25476789   PMID:25586181   PMID:25590580   PMID:25617799   PMID:25640309   PMID:25668475   PMID:25760602   PMID:25796170   PMID:25796184   PMID:25862004   PMID:25897081   PMID:25959826  
PMID:26186194   PMID:26259828   PMID:26299811   PMID:26337385   PMID:26402673   PMID:26457672   PMID:26496610   PMID:26638075   PMID:26721204   PMID:26813343   PMID:26817397   PMID:26840794  
PMID:26942883   PMID:26972000   PMID:27016479   PMID:27052191   PMID:27323329   PMID:27342126   PMID:27432908   PMID:27465552   PMID:27530212   PMID:27752061   PMID:27855221   PMID:27872190  
PMID:27880917   PMID:27959494   PMID:27976820   PMID:28006676   PMID:28082443   PMID:28111468   PMID:28212750   PMID:28246125   PMID:28287835   PMID:28330616   PMID:28378571   PMID:28380382  
PMID:28455143   PMID:28492548   PMID:28514442   PMID:28625849   PMID:28675297   PMID:28684416   PMID:28686728   PMID:28692057   PMID:28707052   PMID:28729389   PMID:28958600   PMID:29021559  
PMID:29235148   PMID:29278704   PMID:29390191   PMID:29395067   PMID:29509190   PMID:29568061   PMID:29604334   PMID:29743567   PMID:29769704   PMID:29877794   PMID:29928877   PMID:29955894  
PMID:30018269   PMID:30110629   PMID:30194290   PMID:30289703   PMID:30548198   PMID:30575818   PMID:30619736   PMID:30669930   PMID:30729132   PMID:30832675   PMID:30833792   PMID:30853337  
PMID:30948266   PMID:31048362   PMID:31056421   PMID:31067491   PMID:31091453   PMID:31173266   PMID:31177093   PMID:31197039   PMID:31395821   PMID:31527250   PMID:31585087   PMID:31586073  
PMID:31732153   PMID:31735331   PMID:31837707   PMID:31873221   PMID:31980649   PMID:32062451   PMID:32194132   PMID:32296183   PMID:32569626   PMID:32788342   PMID:32877691  


Genomics

Comparative Map Data
PTPN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2050,510,321 - 50,585,241 (+)EnsemblGRCh38hg38GRCh38
GRCh382050,510,383 - 50,585,241 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372049,126,858 - 49,201,299 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362048,560,298 - 48,634,495 (+)NCBINCBI36hg18NCBI36
Build 342048,560,297 - 48,634,491NCBI
Celera2045,831,156 - 45,905,376 (+)NCBI
Cytogenetic Map20q13.13NCBI
HuRef2045,875,585 - 45,950,061 (+)NCBIHuRef
CHM1_12049,031,996 - 49,106,433 (+)NCBICHM1_1
Ptpn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392167,772,670 - 167,821,305 (+)NCBIGRCm39mm39
GRCm382167,930,750 - 167,979,385 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2167,932,057 - 167,979,385 (+)EnsemblGRCm38mm10GRCm38
MGSCv372167,757,827 - 167,804,885 (+)NCBIGRCm37mm9NCBIm37
MGSCv362167,623,579 - 167,668,124 (+)NCBImm8
Celera2173,874,374 - 173,921,508 (+)NCBICelera
Cytogenetic Map2H3NCBI
Ptpn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.03164,665,462 - 164,711,936 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3164,665,532 - 164,711,848 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03170,816,897 - 170,866,071 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43159,070,473 - 159,116,792 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13158,976,466 - 159,025,198 (+)NCBI
Celera3155,215,176 - 155,261,496 (+)NCBICelera
Cytogenetic Map3q42NCBI
Ptpn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554457,754,319 - 7,819,275 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554457,754,313 - 7,819,229 (-)NCBIChiLan1.0ChiLan1.0
PTPN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12047,983,098 - 48,057,421 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2047,983,098 - 48,057,421 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02046,854,918 - 46,929,509 (+)NCBIMhudiblu_PPA_v0panPan3
PTPN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2436,936,298 - 37,003,720 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12436,936,469 - 37,010,929 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ptpn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365144,065,455 - 4,083,847 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTPN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1752,017,104 - 52,086,736 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11752,017,100 - 52,086,747 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21758,450,256 - 58,474,772 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PTPN1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1213,385,681 - 13,459,180 (-)NCBI
ChlSab1.1 Ensembl213,387,727 - 13,459,105 (-)Ensembl
Ptpn1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247905,070,537 - 5,135,243 (-)NCBI

Position Markers
AL034534  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372049,153,102 - 49,153,227UniSTSGRCh37
Build 362048,586,509 - 48,586,634RGDNCBI36
Celera2045,857,387 - 45,857,512RGD
Cytogenetic Map20q13.1-q13.2UniSTS
HuRef2045,901,865 - 45,901,990UniSTS
STS-M31724  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372049,199,241 - 49,199,485UniSTSGRCh37
Build 362048,632,648 - 48,632,892RGDNCBI36
Celera2045,903,529 - 45,903,773RGD
Cytogenetic Map20q13.1-q13.2UniSTS
HuRef2045,948,003 - 45,948,247UniSTS
GeneMap99-GB4 RH Map20304.23UniSTS
NCBI RH Map20518.2UniSTS
PMC117295P1  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372049,196,252 - 49,196,358UniSTSGRCh37
Build 362048,629,659 - 48,629,765RGDNCBI36
Celera2045,900,540 - 45,900,646RGD
Cytogenetic Map20q13.1-q13.2UniSTS
HuRef2045,945,014 - 45,945,120UniSTS
PMC117295P2  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372049,196,274 - 49,196,358UniSTSGRCh37
Build 362048,629,681 - 48,629,765RGDNCBI36
Celera2045,900,562 - 45,900,646RGD
Cytogenetic Map20q13.1-q13.2UniSTS
HuRef2045,945,036 - 45,945,120UniSTS
PTPN1_1850  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372049,200,306 - 49,201,087UniSTSGRCh37
Build 362048,633,713 - 48,634,494RGDNCBI36
Celera2045,904,594 - 45,905,375RGD
HuRef2045,949,068 - 45,949,849UniSTS
RH45266  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372049,198,470 - 49,198,597UniSTSGRCh37
Build 362048,631,877 - 48,632,004RGDNCBI36
Celera2045,902,758 - 45,902,885RGD
Cytogenetic Map20q13.1-q13.2UniSTS
HuRef2045,947,232 - 45,947,359UniSTS
GeneMap99-GB4 RH Map20305.19UniSTS
RH11093  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372049,199,005 - 49,199,245UniSTSGRCh37
Build 362048,632,412 - 48,632,652RGDNCBI36
Celera2045,903,293 - 45,903,533RGD
Cytogenetic Map20q13.1-q13.2UniSTS
HuRef2045,947,767 - 45,948,007UniSTS
GeneMap99-GB4 RH Map20305.19UniSTS

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MIR122hsa-miR-122-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI22807119
MIR210hsa-miR-210-3pMirtarbaseexternal_info2DGE//immunoprecipitaion//Luciferase reporter assaFunctional MTI19826008
MIR210hsa-miR-210-3pOncomiRDBexternal_infoNANA22962263

Predicted Target Of
Summary Value
Count of predictions:1268
Count of miRNA genes:760
Interacting mature miRNAs:858
Transcripts:ENST00000371621, ENST00000541713
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 2435 2820 1631 532 1918 373 4305 2027 2815 411 1459 1610 175 1 1204 2736 6 2
Low 4 171 95 92 33 92 52 170 919 8 1 3 52
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NG_012119 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001278618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_002827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AH002942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AI474453 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK290638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK299830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK316563 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL034429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL133230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AU117677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY029236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC015660 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC018164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BT006752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS569123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DB332370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DC300354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HD122567 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HI639118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JA420824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF456940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M31724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M33689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000371621   ⟹   ENSP00000360683
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2050,510,383 - 50,585,241 (+)Ensembl
RefSeq Acc Id: ENST00000541713   ⟹   ENSP00000437732
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2050,510,321 - 50,584,760 (+)Ensembl
RefSeq Acc Id: NM_001278618   ⟹   NP_001265547
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382050,510,383 - 50,585,241 (+)NCBI
GRCh372049,126,858 - 49,201,299 (+)NCBI
HuRef2045,875,585 - 45,950,061 (+)NCBI
CHM1_12049,031,996 - 49,106,433 (+)NCBI
Sequence:
RefSeq Acc Id: NM_002827   ⟹   NP_002818
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382050,510,383 - 50,585,241 (+)NCBI
GRCh372049,126,858 - 49,201,299 (+)NCBI
Build 362048,560,298 - 48,634,495 (+)NCBI Archive
HuRef2045,875,585 - 45,950,061 (+)NCBI
CHM1_12049,031,996 - 49,106,433 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_002818   ⟸   NM_002827
- Peptide Label: isoform 1
- UniProtKB: P18031 (UniProtKB/Swiss-Prot),   A8K3M3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001265547   ⟸   NM_001278618
- Peptide Label: isoform 2
- UniProtKB: P18031 (UniProtKB/Swiss-Prot),   B4DSN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSP00000437732   ⟸   ENST00000541713
RefSeq Acc Id: ENSP00000360683   ⟸   ENST00000371621
Promoters
RGD ID:6798920
Promoter ID:HG_KWN:39808
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:OTTHUMT00000079694
Position:
Human AssemblyChrPosition (strand)Source
Build 362048,560,116 - 48,560,616 (+)MPROMDB
RGD ID:13207287
Promoter ID:EPDNEW_H27225
Type:initiation region
Name:PTPN1_1
Description:protein tyrosine phosphatase, non-receptor type 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh382050,510,383 - 50,510,443EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
NM_002827.4(PTPN1):c.*104dup duplication Insulin resistance, susceptibility to [RCV000014243] Chr20:50582818..50582819 [GRCh38]
Chr20:49199355..49199356 [GRCh37]
Chr20:20q13.13
risk factor
GRCh38/hg38 20q13.13-13.2(chr20:49731076-51202566)x1 copy number loss See cases [RCV000052767] Chr20:49731076..51202566 [GRCh38]
Chr20:48347613..49819103 [GRCh37]
Chr20:47781020..49252510 [NCBI36]
Chr20:20q13.13-13.2
pathogenic
GRCh38/hg38 20q13.13-13.2(chr20:49947237-55875406)x3 copy number gain See cases [RCV000053037] Chr20:49947237..55875406 [GRCh38]
Chr20:48563774..54450462 [GRCh37]
Chr20:47997181..53883869 [NCBI36]
Chr20:20q13.13-13.2
pathogenic
GRCh38/hg38 20q13.12-13.33(chr20:44787704-64277321)x3 copy number gain See cases [RCV000053035] Chr20:44787704..64277321 [GRCh38]
Chr20:43416345..62908674 [GRCh37]
Chr20:42849759..62379118 [NCBI36]
Chr20:20q13.12-13.33
pathogenic
NM_001290268.1(FAM65C):c.2807G>A (p.Arg936Lys) single nucleotide variant Malignant melanoma [RCV000072690] Chr20:50587278 [GRCh38]
Chr20:49203815 [GRCh37]
Chr20:48637222 [NCBI36]
Chr20:20q13.13
not provided
GRCh38/hg38 20p13-q13.33(chr20:99557-64277321)x3 copy number gain See cases [RCV000135859] Chr20:99557..64277321 [GRCh38]
Chr20:80198..62908674 [GRCh37]
Chr20:28198..62379118 [NCBI36]
Chr20:20p13-q13.33
pathogenic
GRCh38/hg38 20q13.13-13.2(chr20:49989123-51495645)x1 copy number loss See cases [RCV000137268] Chr20:49989123..51495645 [GRCh38]
Chr20:48605660..50112183 [GRCh37]
Chr20:48039067..49545590 [NCBI36]
Chr20:20q13.13-13.2
likely pathogenic
GRCh37/hg19 20q13.13-13.2(chr20:47682662-49884981)x1 copy number loss See cases [RCV000167570] Chr20:47682662..49884981 [GRCh37]
Chr20:20q13.13-13.2
likely pathogenic
GRCh37/hg19 20q13.13-13.2(chr20:47627844-52045480)x1 copy number loss See cases [RCV000511555] Chr20:47627844..52045480 [GRCh37]
Chr20:20q13.13-13.2
pathogenic
GRCh37/hg19 20q13.13-13.2(chr20:47726521-50427649)x1 copy number loss See cases [RCV000511416] Chr20:47726521..50427649 [GRCh37]
Chr20:20q13.13-13.2
likely pathogenic
GRCh37/hg19 20p13-q13.33(chr20:61569-62915555)x3 copy number gain See cases [RCV000510832] Chr20:61569..62915555 [GRCh37]
Chr20:20p13-q13.33
pathogenic
GRCh37/hg19 20p13-q13.33(chr20:61569-62915555) copy number gain See cases [RCV000512450] Chr20:61569..62915555 [GRCh37]
Chr20:20p13-q13.33
pathogenic
Single allele duplication not provided [RCV000677941] Chr20:46962638..50647699 [GRCh37]
Chr20:20q13.13-13.2
uncertain significance
GRCh37/hg19 20p13-q13.33(chr20:63244-62948788)x3 copy number gain not provided [RCV000741058] Chr20:63244..62948788 [GRCh37]
Chr20:20p13-q13.33
pathogenic
GRCh37/hg19 20p13-q13.33(chr20:63244-62961294)x3 copy number gain not provided [RCV000741059] Chr20:63244..62961294 [GRCh37]
Chr20:20p13-q13.33
pathogenic
GRCh37/hg19 20p13-q13.33(chr20:63244-62912463)x3 copy number gain not provided [RCV000741057] Chr20:63244..62912463 [GRCh37]
Chr20:20p13-q13.33
pathogenic
NM_002827.4(PTPN1):c.1242C>T (p.Cys414=) single nucleotide variant not provided [RCV000972138] Chr20:50581418 [GRCh38]
Chr20:49197955 [GRCh37]
Chr20:20q13.13
benign
NM_002827.4(PTPN1):c.492A>G (p.Thr164=) single nucleotide variant not provided [RCV000952786] Chr20:50574654 [GRCh38]
Chr20:49191191 [GRCh37]
Chr20:20q13.13
benign
GRCh37/hg19 20q13.13(chr20:49150754-49443848)x3 copy number gain not provided [RCV001007095] Chr20:49150754..49443848 [GRCh37]
Chr20:20q13.13
likely benign

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:9642 AgrOrtholog
COSMIC PTPN1 COSMIC
Ensembl Genes ENSG00000196396 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSP00000360683 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000437732 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENST00000371621 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000541713 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.90.190.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000196396 GTEx
HGNC ID HGNC:9642 ENTREZGENE
Human Proteome Map PTPN1 Human Proteome Map
InterPro Prot-tyrosine_phosphatase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTPase_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ptpn1/Ptpn2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_Pase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_Pase_cat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYR_PHOSPHATASE_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:5770 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 5770 ENTREZGENE
OMIM 125853 OMIM
  176885 OMIM
Pfam Y_phosphatase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA33985 PharmGKB
PIRSF Tyr-Ptase_nr1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS PRTYPHPHTASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TYR_PHOSPHATASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYR_PHOSPHATASE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYR_PHOSPHATASE_PTP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PTPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTPc_motif UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52799 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Hs.417549 ENTREZGENE
UniProt A8K3M3 ENTREZGENE, UniProtKB/TrEMBL
  B4DSN5 ENTREZGENE, UniProtKB/TrEMBL
  P18031 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q5TGD8 UniProtKB/Swiss-Prot
  Q9BQV9 UniProtKB/Swiss-Prot
  Q9NQQ4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-02-19 PTPN1  protein tyrosine phosphatase non-receptor type 1    protein tyrosine phosphatase, non-receptor type 1  Symbol and/or name change 5135510 APPROVED
2011-08-16 PTPN1  protein tyrosine phosphatase, non-receptor type 1  PTPN1  protein tyrosine phosphatase, non-receptor type 1  Symbol and/or name change 5135510 APPROVED