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    Ptp4a3 protein tyrosine phosphatase 4a3 [ Mus musculus (house mouse) ]

    Gene ID: 19245, updated on 3-Dec-2024

    Summary

    Official Symbol
    Ptp4a3provided by MGI
    Official Full Name
    protein tyrosine phosphatase 4a3provided by MGI
    Primary source
    MGI:MGI:1277098
    See related
    Ensembl:ENSMUSG00000059895 AllianceGenome:MGI:1277098
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Prl-3; pPtp4a3
    Summary
    Predicted to enable protein tyrosine phosphatase activity. Acts upstream of or within several processes, including cellular response to leukemia inhibitory factor; positive regulation of vascular permeability; and regulation of vascular endothelial growth factor signaling pathway. Predicted to be located in early endosome and plasma membrane. Predicted to be active in cytoplasm and nucleus. Is expressed in several structures, including central nervous system; gut; hemolymphoid system gland; retina layer; and urinary system. Orthologous to human PTP4A3 (protein tyrosine phosphatase 4A3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in spleen adult (RPKM 91.4), heart adult (RPKM 60.2) and 26 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Ptp4a3 in Genome Data Viewer
    Location:
    15 D3; 15 34.05 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (73594991..73629075)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (73723145..73758766)

    Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 45, member 4 Neighboring gene STARR-positive B cell enhancer mm9_chr15:73476060-73476361 Neighboring gene STARR-seq mESC enhancer starr_38967 Neighboring gene STARR-seq mESC enhancer starr_38972 Neighboring gene G protein-coupled receptor 20 Neighboring gene STARR-positive B cell enhancer mm9_chr15:73548453-73548754 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:73562951-73563152 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:73565412-73565613 Neighboring gene predicted gene, 22106 Neighboring gene STARR-seq mESC enhancer starr_38975 Neighboring gene maestro heat-like repeat family member 5 Neighboring gene NADH:ubiquinone oxidoreductase subunit B4C Neighboring gene predicted gene 6569

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Gene trapped (1) 
    • Targeted (4)  1 citation

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables histone H2AXY142 phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables non-membrane spanning protein tyrosine phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein tyrosine phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein tyrosine phosphatase activity, metal-dependent IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within Notch signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in endothelial cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within endothelial cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within endothelial cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in positive regulation of establishment of protein localization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of establishment of protein localization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of non-canonical NF-kappaB signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of non-canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of vascular permeability IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of vascular endothelial growth factor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in early endosome IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    protein tyrosine phosphatase type IVA 3
    Names
    protein-tyrosine phosphatase of regenerating liver 3
    NP_001159860.1
    NP_001159861.1
    NP_001159862.1
    NP_001344520.1
    NP_001398625.1
    NP_001398626.1
    NP_001398627.1
    NP_001398628.1
    NP_001398629.1
    NP_033001.2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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.

    mRNA and Protein(s)

    1. NM_001166388.2NP_001159860.1  protein tyrosine phosphatase type IVA 3 isoform 1

      See identical proteins and their annotated locations for NP_001159860.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC119884
      Consensus CDS
      CCDS27519.1
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
      Related
      ENSMUSP00000131281.2, ENSMUST00000163582.9
      Conserved Domains (1) summary
      cl28904
      Location:5158
      PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
    2. NM_001166389.2NP_001159861.1  protein tyrosine phosphatase type IVA 3 isoform 1

      See identical proteins and their annotated locations for NP_001159861.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has an alternate 5' UTR exon, as compared to variant 1 has an alternate 5' UTR exon, as compared to variant 1, and encodes isoform 1.
      Source sequence(s)
      AC119884
      Consensus CDS
      CCDS27519.1
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
      Related
      ENSMUSP00000132097.2, ENSMUST00000165541.8
      Conserved Domains (1) summary
      cl28904
      Location:5158
      PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
    3. NM_001166390.2NP_001159862.1  protein tyrosine phosphatase type IVA 3 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' sequence, as compared to variant 1. The resulting isoform (2) is shorter and has a distinct N-terminus, as compared to isoform 1.
      Source sequence(s)
      AC119884
      UniProtKB/TrEMBL
      E9PXS4, Q4FK37
      Related
      ENSMUSP00000131036.2, ENSMUST00000167582.8
      Conserved Domains (1) summary
      cl21483
      Location:18154
      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_001357591.2NP_001344520.1  protein tyrosine phosphatase type IVA 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (12) has an alternate 5' UTR exon, as compared to variant 1, and encodes isoform 1.
      Source sequence(s)
      AC119884
      Consensus CDS
      CCDS27519.1
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
      Related
      ENSMUSP00000154829.2, ENSMUST00000230177.2
      Conserved Domains (1) summary
      cl28904
      Location:5158
      PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
    5. NM_001411696.1NP_001398625.1  protein tyrosine phosphatase type IVA 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (10) has an alternate 5' UTR exon, as compared to variant 1, and encodes isoform 1.
      Source sequence(s)
      AC119884
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
    6. NM_001411697.1NP_001398626.1  protein tyrosine phosphatase type IVA 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) has an alternate 5' UTR exon, as compared to variant 1, and encodes isoform 1.
      Source sequence(s)
      AC119884
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
    7. NM_001411698.1NP_001398627.1  protein tyrosine phosphatase type IVA 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) has an alternate 5' UTR exon, as compared to variant 1, and encodes isoform 1.
      Source sequence(s)
      AC119884
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
    8. NM_001411699.1NP_001398628.1  protein tyrosine phosphatase type IVA 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) has an alternate 5' UTR exon, as compared to variant 1, and encodes isoform 1.
      Source sequence(s)
      AC119884
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
    9. NM_001411700.1NP_001398629.1  protein tyrosine phosphatase type IVA 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) has an alternate 5' UTR exon, as compared to variant 1, and encodes isoform 1.
      Source sequence(s)
      AC119884
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
    10. NM_008975.4NP_033001.2  protein tyrosine phosphatase type IVA 3 isoform 1

      See identical proteins and their annotated locations for NP_033001.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an alternate 5' UTR exon, as compared to variant 1, and encodes isoform 1.
      Source sequence(s)
      AC119884
      Consensus CDS
      CCDS27519.1
      UniProtKB/Swiss-Prot
      O70275, Q3T9Z5, Q9CTC8, Q9D658
      UniProtKB/TrEMBL
      Q4FK37
      Related
      ENSMUSP00000060956.7, ENSMUST00000053232.8
      Conserved Domains (1) summary
      cl28904
      Location:5158
      PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily

    RNA

    1. NR_177452.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (11) has an alternate 5' UTR exon and skips an internal exon, as compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region, including the translational start codon, found in variant 1.
      Source sequence(s)
      AC119884

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000081.7 Reference GRCm39 C57BL/6J

      Range
      73594991..73629075
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)