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    PTX3 pentraxin 3 [ Homo sapiens (human) ]

    Gene ID: 5806, updated on 17-Jun-2024

    Summary

    Official Symbol
    PTX3provided by HGNC
    Official Full Name
    pentraxin 3provided by HGNC
    Primary source
    HGNC:HGNC:9692
    See related
    Ensembl:ENSG00000163661 MIM:602492; AllianceGenome:HGNC:9692
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TSG-14; TNFAIP5
    Summary
    This gene encodes a member of the pentraxin protein family. The expression of this protein is induced by inflammatory cytokines in response to inflammatory stimuli in several mesenchymal and epithelial cell types, particularly endothelial cells and mononuclear phagocytes. The protein promotes fibrocyte differentiation and is involved in regulating inflammation and complement activation. It also plays a role in angiogenesis and tissue remodeling. The protein serves as a biomarker for several inflammatory conditions. [provided by RefSeq, Jun 2016]
    Expression
    Biased expression in bone marrow (RPKM 32.2), appendix (RPKM 24.8) and 6 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See PTX3 in Genome Data Viewer
    Location:
    3q25.32
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (157436850..157443633)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (160211418..160218201)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (157154639..157161422)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101928236 Neighboring gene uncharacterized LOC105374179 Neighboring gene VISTA enhancer hs2571 Neighboring gene NANOG hESC enhancer GRCh37_chr3:156973526-156974057 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:156992312-156992853 Neighboring gene PCBP2 pseudogene 4 Neighboring gene ventricular zone expressed PH domain containing 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:157216797-157217361 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:157217362-157217925 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:157220998-157221232 Neighboring gene CRISPRi-validated cis-regulatory element chr3.4666 Neighboring gene solute carrier family 66 member 1 like, pseudogene Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_65660 Neighboring gene VISTA enhancer hs638 Neighboring gene RN7SK pseudogene 46

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables (1->3)-beta-D-glucan binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables complement component C1q complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables complement component C1q complex binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables virion binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in extracellular matrix organization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in inflammatory response TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in innate immune response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation by host of viral exo-alpha-sialidase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation by host of viral glycoprotein metabolic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation by host of viral process IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of exo-alpha-sialidase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of glycoprotein metabolic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of viral entry into host cell IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in opsonization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in ovarian cumulus expansion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of nitric oxide biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of phagocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in response to yeast IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular region TAS
    Traceable Author Statement
    more info
     
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in specific granule lumen TAS
    Traceable Author Statement
    more info
     
    located_in tertiary granule lumen TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    pentraxin-related protein PTX3
    Names
    TNF alpha-induced protein 5
    long pentraxin 3
    tumor necrosis factor alpha-induced protein 5
    tumor necrosis factor-inducible gene 14 protein
    tumor necrosis factor-inducible protein TSG-14

    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.

    Genomic

    1. NG_051000.1 RefSeqGene

      Range
      5060..11843
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_002852.4NP_002843.2  pentraxin-related protein PTX3 precursor

      See identical proteins and their annotated locations for NP_002843.2

      Status: REVIEWED

      Source sequence(s)
      AC020630, BC039733, BQ010272, DA716533
      Consensus CDS
      CCDS3180.1
      UniProtKB/Swiss-Prot
      B2R6T6, P26022, Q38M82
      Related
      ENSP00000295927.3, ENST00000295927.4
      Conserved Domains (2) summary
      smart00159
      Location:175381
      PTX; Pentraxin / C-reactive protein / pentaxin family
      cl23844
      Location:81167
      Ble; Predicted trehalose synthase [Carbohydrate transport and metabolism]

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      157436850..157443633
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      160211418..160218201
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)