This gene belongs to the pentraxin superfamily, whose members encode highly conserved multifunctional proteins. The encoded protein, like other members of this family, contains a conserved pentraxin domain at the C-terminus. The highest levels of expression of the protein were observed in bone marrow, small intestine and testes. [provided by RefSeq, Jun 2016] See more...

Aliases for PTX4 Gene

Aliases for PTX4 Gene

  • Pentraxin 4 2 3 5
  • Pentraxin 4, Long 2 3
  • Long Pentraxin 4 2 3
  • Pentraxin-4 3 4
  • C16orf38 3 4
  • Neuronal Pentraxin-Like Protein C16orf38 3
  • Chromosome 16 Open Reading Frame 38 2

External Ids for PTX4 Gene

Previous HGNC Symbols for PTX4 Gene

  • C16orf38

Previous GeneCards Identifiers for PTX4 Gene

  • GC16M001535
  • GC16M001461

Summaries for PTX4 Gene

Entrez Gene Summary for PTX4 Gene

  • This gene belongs to the pentraxin superfamily, whose members encode highly conserved multifunctional proteins. The encoded protein, like other members of this family, contains a conserved pentraxin domain at the C-terminus. The highest levels of expression of the protein were observed in bone marrow, small intestine and testes. [provided by RefSeq, Jun 2016]

GeneCards Summary for PTX4 Gene

PTX4 (Pentraxin 4) is a Protein Coding gene. An important paralog of this gene is NPTX1.

Additional gene information for PTX4 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PTX4 Gene

Genomics for PTX4 Gene

GeneHancer (GH) Regulatory Elements for PTX4 Gene

Promoters and enhancers for PTX4 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PTX4 on UCSC Golden Path with GeneCards custom track

Genomic Locations for PTX4 Gene

Genomic Locations for PTX4 Gene
chr16:1,485,886-1,488,981
(GRCh38/hg38)
Size:
3,096 bases
Orientation:
Minus strand
chr16:1,535,887-1,538,982
(GRCh37/hg19)
Size:
3,096 bases
Orientation:
Minus strand

Genomic View for PTX4 Gene

Genes around PTX4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PTX4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PTX4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PTX4 Gene

Proteins for PTX4 Gene

  • Protein details for PTX4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96A99-PTX4_HUMAN
    Recommended name:
    Pentraxin-4
    Protein Accession:
    Q96A99

    Protein attributes for PTX4 Gene

    Size:
    478 amino acids
    Molecular mass:
    52339 Da
    Cofactor:
    Name=Ca(2+); Xref=ChEBI:CHEBI:29108;
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PTX4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PTX4 Gene

Post-translational modifications for PTX4 Gene

  • Glycosylation at Asn67 and Asn91

Other Protein References for PTX4 Gene

No data available for DME Specific Peptides for PTX4 Gene

Domains & Families for PTX4 Gene

Gene Families for PTX4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for PTX4 Gene

Suggested Antigen Peptide Sequences for PTX4 Gene

GenScript: Design optimal peptide antigens:
  • Pentraxin-4 (PTX4_HUMAN)
genes like me logo Genes that share domains with PTX4: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for PTX4 Gene

Function for PTX4 Gene

Molecular function for PTX4 Gene

UniProtKB/Swiss-Prot Induction:
Not induced by bacterial lipopolysaccharideS (LPS) or IL1/interleukin-1 in endothelium, monocytes or neutrophils. Not induced by PHA in lymphocytes.

Phenotypes From GWAS Catalog for PTX4 Gene

Gene Ontology (GO) - Molecular Function for PTX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with PTX4: view

Phenotypes for PTX4 Gene

genes like me logo Genes that share phenotypes with PTX4: view

Animal Model Products

CRISPR Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PTX4 Gene

Localization for PTX4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PTX4 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PTX4 gene
Compartment Confidence
extracellular 3

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for PTX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
genes like me logo Genes that share ontologies with PTX4: view

Pathways & Interactions for PTX4 Gene

PathCards logo

SuperPathways for PTX4 Gene

No Data Available

Interacting Proteins for PTX4 Gene

STRING Interaction Network Preview (showing top 1 STRING interactants - click image to see details)
STRING Interaction Network
Selected Interacting proteins: ENSP00000293922 Q96A99-PTX4_HUMAN for PTX4 Gene via STRING IID

Gene Ontology (GO) - Biological Process for PTX4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for PTX4 Gene

Drugs & Compounds for PTX4 Gene

(1) Drugs for PTX4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Calcium Approved Nutra 7773
genes like me logo Genes that share compounds with PTX4: view

Transcripts for PTX4 Gene

mRNA/cDNA for PTX4 Gene

(2) REFSEQ mRNAs :
(3) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PTX4 Gene

No ASD Table

Relevant External Links for PTX4 Gene

GeneLoc Exon Structure for
PTX4
ECgene alternative splicing isoforms for
PTX4

Expression for PTX4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PTX4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PTX4 Gene

This gene is overexpressed in Testis (x6.8).

Protein differential expression in normal tissues from HIPED for PTX4 Gene

This gene is overexpressed in Cerebrospinal fluid (68.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PTX4 Gene



Protein tissue co-expression partners for PTX4 Gene

NURSA nuclear receptor signaling pathways regulating expression of PTX4 Gene:

PTX4

SOURCE GeneReport for Unigene cluster for PTX4 Gene:

Hs.553770

mRNA Expression by UniProt/SwissProt for PTX4 Gene:

Q96A99-PTX4_HUMAN
Tissue specificity: Widely expressed at low levels with highest levels in small intestine, testis and brain. Very low expression in endothelial cells, monocytes, neutrophils and lymphocytes. Isoform 1 is not expressed in small intestine.
genes like me logo Genes that share expression patterns with PTX4: view

No data available for Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for PTX4 Gene

Orthologs for PTX4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PTX4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PTX4 33 32
  • 98.66 (n)
OneToOne
dog
(Canis familiaris)
Mammalia -- 33
  • 81 (a)
OneToMany
PTX4 32
  • 78.07 (n)
-- 33
  • 47 (a)
OneToMany
cow
(Bos Taurus)
Mammalia PTX4 33 32
  • 77.29 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Ptx4 17 33 32
  • 73.95 (n)
rat
(Rattus norvegicus)
Mammalia Ptx4 32
  • 73.48 (n)
oppossum
(Monodelphis domestica)
Mammalia PTX4 33
  • 49 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PTX4 33
  • 43 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PTX4 33
  • 44 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ptx4 32
  • 56.56 (n)
zebrafish
(Danio rerio)
Actinopterygii ptx4 33 32
  • 48.61 (n)
OneToOne
Species where no ortholog for PTX4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PTX4 Gene

ENSEMBL:
Gene Tree for PTX4 (if available)
TreeFam:
Gene Tree for PTX4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PTX4: view image

Paralogs for PTX4 Gene

Paralogs for PTX4 Gene

genes like me logo Genes that share paralogs with PTX4: view

Variants for PTX4 Gene

Sequence variations from dbSNP and Humsavar for PTX4 Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs1000025692 -- 1,488,728(-) A/C/G genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000493417 -- 1,490,224(-) C/T upstream_transcript_variant
rs1001133099 -- 1,487,722(-) G/A coding_sequence_variant, synonymous_variant
rs1001821957 -- 1,489,669(-) C/T upstream_transcript_variant
rs1001992519 -- 1,490,494(-) G/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for PTX4 Gene

Variant ID Type Subtype PubMed ID
dgv4854n54 CNV loss 21841781
esv2422427 CNV duplication 17116639
esv2762143 CNV gain 21179565
nsv457332 CNV loss 19166990
nsv571162 CNV loss 21841781
nsv819259 CNV gain 19587683
nsv952899 CNV deletion 24416366

Variation tolerance for PTX4 Gene

Residual Variation Intolerance Score: 99.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 22.23; 99.40% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PTX4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PTX4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PTX4 Gene

Disorders for PTX4 Gene

Additional Disease Information for PTX4

No disorders were found for PTX4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PTX4 Gene

Publications for PTX4 Gene

  1. Evolution of the pentraxin family: the new entry PTX4. (PMID: 20357257) Martinez de la Torre Y … Garlanda C (Journal of immunology (Baltimore, Md. : 1950) 2010) 3 4 56
  2. Sequence, structure and pathology of the fully annotated terminal 2 Mb of the short arm of human chromosome 16. (PMID: 11157797) Daniels RJ … Higgs DR (Human molecular genetics 2001) 3 4 56
  3. Genome-wide meta-analysis identifies 56 bone mineral density loci and reveals 14 loci associated with risk of fracture. (PMID: 22504420) Estrada K … Rivadeneira F (Nature genetics 2012) 3 56
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 4 56
  5. The sequence and analysis of duplication-rich human chromosome 16. (PMID: 15616553) Martin J … Pennacchio LA (Nature 2004) 4 56

Products for PTX4 Gene

Sources for PTX4 Gene