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PTX4 (pentraxin 4)

Identity

Alias_namesC16orf38
chromosome 16 open reading frame 38
pentraxin 4, long
Other alias
HGNC (Hugo) PTX4
LocusID (NCBI) 390667
Atlas_Id 72398
Location 16p13.3  [Link to chromosome band 16p13]
Location_base_pair Starts at 1485939 and ends at 1488467 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)PTX4   14171
Cards
Entrez_Gene (NCBI)PTX4  390667  pentraxin 4
AliasesC16orf38
GeneCards (Weizmann)PTX4
Ensembl hg19 (Hinxton)ENSG00000251692 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000251692 [Gene_View]  chr16:1485939-1488467 [Contig_View]  PTX4 [Vega]
ICGC DataPortalENSG00000251692
TCGA cBioPortalPTX4
AceView (NCBI)PTX4
Genatlas (Paris)PTX4
WikiGenes390667
SOURCE (Princeton)PTX4
Genetics Home Reference (NIH)PTX4
Genomic and cartography
GoldenPath hg38 (UCSC)PTX4  -     chr16:1485939-1488467 -  16p13.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PTX4  -     16p13.3   [Description]    (hg19-Feb_2009)
EnsemblPTX4 - 16p13.3 [CytoView hg19]  PTX4 - 16p13.3 [CytoView hg38]
Mapping of homologs : NCBIPTX4 [Mapview hg19]  PTX4 [Mapview hg38]
OMIM613442   
Gene and transcription
Genbank (Entrez)BC156066 BC156944
RefSeq transcript (Entrez)NM_001013658 NM_001328608
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PTX4
Cluster EST : UnigeneHs.553770 [ NCBI ]
CGAP (NCI)Hs.553770
Alternative Splicing GalleryENSG00000251692
Gene ExpressionPTX4 [ NCBI-GEO ]   PTX4 [ EBI - ARRAY_EXPRESS ]   PTX4 [ SEEK ]   PTX4 [ MEM ]
Gene Expression Viewer (FireBrowse)PTX4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)390667
GTEX Portal (Tissue expression)PTX4
Human Protein AtlasENSG00000251692-PTX4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96A99   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96A99  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96A99
Splice isoforms : SwissVarQ96A99
PhosPhoSitePlusQ96A99
Domaine pattern : Prosite (Expaxy)PTX_2 (PS51828)   
Domains : Interpro (EBI)ConA-like_dom    Pentraxin-related   
Domain families : Pfam (Sanger)Pentaxin (PF00354)   
Domain families : Pfam (NCBI)pfam00354   
Domain families : Smart (EMBL)PTX (SM00159)  
Conserved Domain (NCBI)PTX4
DMDM Disease mutations390667
Blocks (Seattle)PTX4
SuperfamilyQ96A99
Human Protein Atlas [tissue]ENSG00000251692-PTX4 [tissue]
Peptide AtlasQ96A99
HPRD18401
IPIIPI00059308   IPI00973384   
Protein Interaction databases
DIP (DOE-UCLA)Q96A99
IntAct (EBI)Q96A99
FunCoupENSG00000251692
BioGRIDPTX4
STRING (EMBL)PTX4
ZODIACPTX4
Ontologies - Pathways
QuickGOQ96A99
Ontology : AmiGOextracellular region  metal ion binding  
Ontology : EGO-EBIextracellular region  metal ion binding  
NDEx NetworkPTX4
Atlas of Cancer Signalling NetworkPTX4
Wikipedia pathwaysPTX4
Orthology - Evolution
OrthoDB390667
GeneTree (enSembl)ENSG00000251692
Phylogenetic Trees/Animal Genes : TreeFamPTX4
HOVERGENQ96A99
HOGENOMQ96A99
Homologs : HomoloGenePTX4
Homology/Alignments : Family Browser (UCSC)PTX4
Gene fusions - Rearrangements
Fusion: Tumor Portal PTX4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPTX4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PTX4
dbVarPTX4
ClinVarPTX4
1000_GenomesPTX4 
Exome Variant ServerPTX4
ExAC (Exome Aggregation Consortium)ENSG00000251692
GNOMAD BrowserENSG00000251692
Genetic variants : HAPMAP390667
Genomic Variants (DGV)PTX4 [DGVbeta]
DECIPHERPTX4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPTX4 
Mutations
ICGC Data PortalPTX4 
TCGA Data PortalPTX4 
Broad Tumor PortalPTX4
OASIS PortalPTX4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPTX4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPTX4
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PTX4
DgiDB (Drug Gene Interaction Database)PTX4
DoCM (Curated mutations)PTX4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PTX4 (select a term)
intoGenPTX4
Cancer3DPTX4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM613442   
Orphanet
MedgenPTX4
Genetic Testing Registry PTX4
NextProtQ96A99 [Medical]
TSGene390667
GENETestsPTX4
Target ValidationPTX4
Huge Navigator PTX4 [HugePedia]
snp3D : Map Gene to Disease390667
BioCentury BCIQPTX4
ClinGenPTX4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD390667
Chemical/Pharm GKB GenePA25553
Clinical trialPTX4
Miscellaneous
canSAR (ICR)PTX4 (select the gene name)
Probes
Litterature
PubMed3 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePTX4
EVEXPTX4
GoPubMedPTX4
iHOPPTX4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Nov 9 12:24:06 CET 2017

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