Human Gene PTP4A1 (ENST00000626021.3_3) from GENCODE V47lift37
  Description: protein tyrosine phosphatase 4A1, transcript variant 17 (from RefSeq NR_169596.2)
Gencode Transcript: ENST00000626021.3_3
Gencode Gene: ENSG00000112245.14_9
Transcript (Including UTRs)
   Position: hg19 chr6:64,282,385-64,293,493 Size: 11,109 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr6:64,286,786-64,290,079 Size: 3,294 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:64,282,385-64,293,493)mRNA (may differ from genome)Protein (173 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TP4A1_HUMAN
DESCRIPTION: RecName: Full=Protein tyrosine phosphatase type IVA 1; EC=3.1.3.48; AltName: Full=PTP(CAAXI); AltName: Full=Protein-tyrosine phosphatase 4a1; AltName: Full=Protein-tyrosine phosphatase of regenerating liver 1; Short=PRL-1; Flags: Precursor;
FUNCTION: Protein tyrosine phosphatase which stimulates progression from G1 into S phase during mitosis. May play a role in the development and maintenance of differentiating epithelial tissues. Enhances cell proliferation, cell motility and invasive activity, and promotes cancer metastasis.
CATALYTIC ACTIVITY: Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate.
ENZYME REGULATION: Inhibited by sodium orthovanadate and pentamidine.
SUBUNIT: Homotrimer. Interacts with ATF5 (By similarity). Interacts with tubulin.
SUBCELLULAR LOCATION: Cell membrane. Early endosome. Endoplasmic reticulum. Cytoplasm. Cytoplasm, cytoskeleton, spindle. Note=And mitotic spindle.
TISSUE SPECIFICITY: Expressed in bone marrow, lymph nodes, T lymphocytes, spleen, thymus and tonsil. Overexpressed in tumor cell lines.
DEVELOPMENTAL STAGE: Expressed in fetal liver.
INDUCTION: Strongly down-regulated upon tetrodotoxin treatment.
PTM: Farnesylated. Farnesylation is required for membrane targeting. Unfarnesylated forms are shifted into the nucleus.
SIMILARITY: Belongs to the protein-tyrosine phosphatase family.
SIMILARITY: Contains 1 tyrosine-protein phosphatase domain.

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -192.70685-0.281 Picture PostScript Text
3' UTR -755.203414-0.221 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
IPR000387 - Tyr/Dual-specificity_Pase
IPR000242 - Tyr_Pase_rcpt/non-rcpt

Pfam Domains:
PF00102 - Protein-tyrosine phosphatase

SCOP Domains:
52799 - (Phosphotyrosine protein) phosphatases II

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1RXD - X-ray MuPIT 1XM2 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q93096
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 Details  
Gene Sorter  Gene Sorter  
  Ensembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004721 phosphoprotein phosphatase activity
GO:0004725 protein tyrosine phosphatase activity
GO:0005515 protein binding
GO:0008138 protein tyrosine/serine/threonine phosphatase activity
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity

Biological Process:
GO:0006470 protein dephosphorylation
GO:0007049 cell cycle
GO:0007275 multicellular organism development
GO:0016311 dephosphorylation
GO:0030335 positive regulation of cell migration
GO:0035335 peptidyl-tyrosine dephosphorylation

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005768 endosome
GO:0005769 early endosome
GO:0005783 endoplasmic reticulum
GO:0005819 spindle
GO:0005856 cytoskeleton
GO:0005886 plasma membrane
GO:0009898 cytoplasmic side of plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  CR749458 - Homo sapiens mRNA; cDNA DKFZp779M0721 (from clone DKFZp779M0721).
BC045571 - Homo sapiens protein tyrosine phosphatase type IVA, member 1, mRNA (cDNA clone MGC:57320 IMAGE:4826233), complete cds.
LF205171 - JP 2014500723-A/12674: Polycomb-Associated Non-Coding RNAs.
JD395191 - Sequence 376215 from Patent EP1572962.
JD224574 - Sequence 205598 from Patent EP1572962.
AK312526 - Homo sapiens cDNA, FLJ92892, Homo sapiens protein tyrosine phosphatase type IVA, member 1(PTP4A1), mRNA.
BC023975 - Homo sapiens protein tyrosine phosphatase type IVA, member 1, mRNA (cDNA clone MGC:1659 IMAGE:2960001), complete cds.
JD458285 - Sequence 439309 from Patent EP1572962.
JD129092 - Sequence 110116 from Patent EP1572962.
JD129040 - Sequence 110064 from Patent EP1572962.
MF125229 - Homo sapiens bio-material MLL_11932 case PVT1/PTP4A1 fusion mRNA, partial sequence.
U48296 - Homo sapiens protein tyrosine phosphatase PTPCAAX1 (hPTPCAAX1) mRNA, complete cds.
JD064940 - Sequence 45964 from Patent EP1572962.
LF317246 - JP 2014500723-A/124749: Polycomb-Associated Non-Coding RNAs.
AB385532 - Synthetic construct DNA, clone: pF1KB3988, Homo sapiens PTP4A1 gene for protein tyrosine phosphatase type IVA, member 1, complete cds, without stop codon, in Flexi system.
EU831686 - Synthetic construct Homo sapiens clone HAIB:100066715; DKFZo003B0820 protein tyrosine phosphatase type IVA, member 1 protein (PTP4A1) gene, encodes complete protein.
DQ890715 - Synthetic construct clone IMAGE:100003345; FLH165397.01X; RZPDo839B10160D protein tyrosine phosphatase type IVA, member 1 (PTP4A1) gene, encodes complete protein.
DQ893895 - Synthetic construct Homo sapiens clone IMAGE:100008355; FLH165393.01L; RZPDo839B10159D protein tyrosine phosphatase type IVA, member 1 (PTP4A1) gene, encodes complete protein.
CU692824 - Synthetic construct Homo sapiens gateway clone IMAGE:100021865 5' read PTP4A1 mRNA.
EU831599 - Synthetic construct Homo sapiens clone HAIB:100066628; DKFZo007B0819 protein tyrosine phosphatase type IVA, member 1 protein (PTP4A1) gene, encodes complete protein.
KJ892434 - Synthetic construct Homo sapiens clone ccsbBroadEn_01828 PTP4A1 gene, encodes complete protein.
AB451444 - Homo sapiens PTP4A1 mRNA for protein tyrosine phosphatase type IVA protein 1, partial cds, clone: FLJ08177AAAF.
AB451314 - Homo sapiens PTP4A1 mRNA for protein tyrosine phosphatase type IVA protein 1, complete cds, clone: FLJ08177AAAN.
JD028944 - Sequence 9968 from Patent EP1572962.
JD035259 - Sequence 16283 from Patent EP1572962.
U69701 - Human protein tyrosine phosphatase hPRL-1N mRNA, partial cds.
LF317244 - JP 2014500723-A/124747: Polycomb-Associated Non-Coding RNAs.
JD491376 - Sequence 472400 from Patent EP1572962.
JD244826 - Sequence 225850 from Patent EP1572962.
LF317243 - JP 2014500723-A/124746: Polycomb-Associated Non-Coding RNAs.
JD049908 - Sequence 30932 from Patent EP1572962.
JD023911 - Sequence 4935 from Patent EP1572962.
JD284365 - Sequence 265389 from Patent EP1572962.
JD318357 - Sequence 299381 from Patent EP1572962.
JD217092 - Sequence 198116 from Patent EP1572962.
JD296197 - Sequence 277221 from Patent EP1572962.
AJ420505 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 2096405.
JD168405 - Sequence 149429 from Patent EP1572962.
JD482412 - Sequence 463436 from Patent EP1572962.
LF317242 - JP 2014500723-A/124745: Polycomb-Associated Non-Coding RNAs.
JD562698 - Sequence 543722 from Patent EP1572962.
JD292621 - Sequence 273645 from Patent EP1572962.
JD301969 - Sequence 282993 from Patent EP1572962.
JD327433 - Sequence 308457 from Patent EP1572962.
LF317241 - JP 2014500723-A/124744: Polycomb-Associated Non-Coding RNAs.
JD083939 - Sequence 64963 from Patent EP1572962.
JD301310 - Sequence 282334 from Patent EP1572962.
JD090735 - Sequence 71759 from Patent EP1572962.
JD109896 - Sequence 90920 from Patent EP1572962.
JD064239 - Sequence 45263 from Patent EP1572962.
JD181353 - Sequence 162377 from Patent EP1572962.
JD294916 - Sequence 275940 from Patent EP1572962.
JD260751 - Sequence 241775 from Patent EP1572962.
LF317240 - JP 2014500723-A/124743: Polycomb-Associated Non-Coding RNAs.
JD113844 - Sequence 94868 from Patent EP1572962.
JD150220 - Sequence 131244 from Patent EP1572962.
JD147314 - Sequence 128338 from Patent EP1572962.
LF317239 - JP 2014500723-A/124742: Polycomb-Associated Non-Coding RNAs.
JD514726 - Sequence 495750 from Patent EP1572962.
JD313412 - Sequence 294436 from Patent EP1572962.
MA440748 - JP 2018138019-A/12674: Polycomb-Associated Non-Coding RNAs.
MA552823 - JP 2018138019-A/124749: Polycomb-Associated Non-Coding RNAs.
MA552821 - JP 2018138019-A/124747: Polycomb-Associated Non-Coding RNAs.
MA552820 - JP 2018138019-A/124746: Polycomb-Associated Non-Coding RNAs.
MA552819 - JP 2018138019-A/124745: Polycomb-Associated Non-Coding RNAs.
MA552818 - JP 2018138019-A/124744: Polycomb-Associated Non-Coding RNAs.
MA552817 - JP 2018138019-A/124743: Polycomb-Associated Non-Coding RNAs.
MA552816 - JP 2018138019-A/124742: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R6C8, ENST00000626021.1, ENST00000626021.2, NR_169596, O00648, PRL1, PTPCAAX1, Q49A54, Q93096, TP4A1_HUMAN, uc327xmf.1, uc327xmf.2
UCSC ID: ENST00000626021.3_3
RefSeq Accession: NM_003463.5
Protein: Q93096 (aka TP4A1_HUMAN)

-  Gene Model Information
  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.