Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CCL20 (C-C motif chemokine ligand 20)

Identity

Alias_namesSCYA20
small inducible cytokine subfamily A (Cys-Cys), member 20
chemokine (C-C motif) ligand 20
Alias_symbol (synonym)LARC
MIP-3a
exodus-1
ST38
CKb4
Other aliasExodus
MIP-3-alpha
MIP3A
HGNC (Hugo) CCL20
LocusID (NCBI) 6364
Atlas_Id 45839
Location 2q36.3  [Link to chromosome band 2q36]
Location_base_pair Starts at 228678558 and ends at 228682280 bp from pter ( according to hg19-Feb_2009)

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)CCL20   10619
Cards
Entrez_Gene (NCBI)CCL20  6364  C-C motif chemokine ligand 20
AliasesCKb4; Exodus; LARC; MIP-3-alpha; 
MIP-3a; MIP3A; SCYA20; ST38
GeneCards (Weizmann)CCL20
Ensembl hg19 (Hinxton)ENSG00000115009 [Gene_View]  chr2:228678558-228682280 [Contig_View]  CCL20 [Vega]
Ensembl hg38 (Hinxton)ENSG00000115009 [Gene_View]  chr2:228678558-228682280 [Contig_View]  CCL20 [Vega]
ICGC DataPortalENSG00000115009
TCGA cBioPortalCCL20
AceView (NCBI)CCL20
Genatlas (Paris)CCL20
WikiGenes6364
SOURCE (Princeton)CCL20
Genetics Home Reference (NIH)CCL20
Genomic and cartography
GoldenPath hg19 (UCSC)CCL20  -     chr2:228678558-228682280 +  2q36.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CCL20  -     2q36.3   [Description]    (hg38-Dec_2013)
EnsemblCCL20 - 2q36.3 [CytoView hg19]  CCL20 - 2q36.3 [CytoView hg38]
Mapping of homologs : NCBICCL20 [Mapview hg19]  CCL20 [Mapview hg38]
OMIM601960   
Gene and transcription
Genbank (Entrez)BC020698 D17012 D86955 DQ891973 DQ896841
RefSeq transcript (Entrez)NM_001130046 NM_004591
RefSeq genomic (Entrez)NC_000002 NC_018913 NT_005403 NW_004929305
Consensus coding sequences : CCDS (NCBI)CCL20
Cluster EST : UnigeneHs.75498 [ NCBI ]
CGAP (NCI)Hs.75498
Alternative Splicing GalleryENSG00000115009
Gene ExpressionCCL20 [ NCBI-GEO ]   CCL20 [ EBI - ARRAY_EXPRESS ]   CCL20 [ SEEK ]   CCL20 [ MEM ]
Gene Expression Viewer (FireBrowse)CCL20 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6364
GTEX Portal (Tissue expression)CCL20
Protein : pattern, domain, 3D structure
UniProt/SwissProtP78556   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP78556  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP78556
Splice isoforms : SwissVarP78556
PhosPhoSitePlusP78556
Domaine pattern : Prosite (Expaxy)SMALL_CYTOKINES_CC (PS00472)   
Domains : Interpro (EBI)Chemokine_CC_CS    Chemokine_IL8-like_dom   
Domain families : Pfam (Sanger)IL8 (PF00048)   
Domain families : Pfam (NCBI)pfam00048   
Domain families : Smart (EMBL)SCY (SM00199)  
Conserved Domain (NCBI)CCL20
DMDM Disease mutations6364
Blocks (Seattle)CCL20
PDB (SRS)1M8A    2HCI    2JYO   
PDB (PDBSum)1M8A    2HCI    2JYO   
PDB (IMB)1M8A    2HCI    2JYO   
PDB (RSDB)1M8A    2HCI    2JYO   
Structural Biology KnowledgeBase1M8A    2HCI    2JYO   
SCOP (Structural Classification of Proteins)1M8A    2HCI    2JYO   
CATH (Classification of proteins structures)1M8A    2HCI    2JYO   
SuperfamilyP78556
Human Protein AtlasENSG00000115009
Peptide AtlasP78556
HPRD03571
IPIIPI00020355   IPI00216291   
Protein Interaction databases
DIP (DOE-UCLA)P78556
IntAct (EBI)P78556
FunCoupENSG00000115009
BioGRIDCCL20
STRING (EMBL)CCL20
ZODIACCCL20
Ontologies - Pathways
QuickGOP78556
Ontology : AmiGOmonocyte chemotaxis  protein binding  extracellular region  extracellular space  chemotaxis  inflammatory response  immune response  signal transduction  G-protein coupled receptor signaling pathway  cell-cell signaling  chemokine activity  neutrophil chemotaxis  wound healing  defense response to bacterium  positive regulation of GTPase activity  CCR chemokine receptor binding  lymphocyte chemotaxis  positive regulation of interleukin-1 alpha biosynthetic process  positive regulation of nitric-oxide synthase biosynthetic process  chemokine-mediated signaling pathway  positive regulation of ERK1 and ERK2 cascade  cellular response to lipopolysaccharide  cellular response to lipoteichoic acid  cellular response to interferon-gamma  cellular response to interleukin-1  cellular response to tumor necrosis factor  positive regulation of T cell migration  
Ontology : EGO-EBImonocyte chemotaxis  protein binding  extracellular region  extracellular space  chemotaxis  inflammatory response  immune response  signal transduction  G-protein coupled receptor signaling pathway  cell-cell signaling  chemokine activity  neutrophil chemotaxis  wound healing  defense response to bacterium  positive regulation of GTPase activity  CCR chemokine receptor binding  lymphocyte chemotaxis  positive regulation of interleukin-1 alpha biosynthetic process  positive regulation of nitric-oxide synthase biosynthetic process  chemokine-mediated signaling pathway  positive regulation of ERK1 and ERK2 cascade  cellular response to lipopolysaccharide  cellular response to lipoteichoic acid  cellular response to interferon-gamma  cellular response to interleukin-1  cellular response to tumor necrosis factor  positive regulation of T cell migration  
Pathways : KEGGCytokine-cytokine receptor interaction    Chemokine signaling pathway    TNF signaling pathway    Rheumatoid arthritis   
NDEx NetworkCCL20
Atlas of Cancer Signalling NetworkCCL20
Wikipedia pathwaysCCL20
Orthology - Evolution
OrthoDB6364
GeneTree (enSembl)ENSG00000115009
Phylogenetic Trees/Animal Genes : TreeFamCCL20
HOVERGENP78556
HOGENOMP78556
Homologs : HomoloGeneCCL20
Homology/Alignments : Family Browser (UCSC)CCL20
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCCL20 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CCL20
dbVarCCL20
ClinVarCCL20
1000_GenomesCCL20 
Exome Variant ServerCCL20
ExAC (Exome Aggregation Consortium)CCL20 (select the gene name)
Genetic variants : HAPMAP6364
Genomic Variants (DGV)CCL20 [DGVbeta]
DECIPHER (Syndromes)2:228678558-228682280  ENSG00000115009
CONAN: Copy Number AnalysisCCL20 
Mutations
ICGC Data PortalCCL20 
TCGA Data PortalCCL20 
Broad Tumor PortalCCL20
OASIS PortalCCL20 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCCL20  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCCL20
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CCL20
DgiDB (Drug Gene Interaction Database)CCL20
DoCM (Curated mutations)CCL20 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CCL20 (select a term)
intoGenCCL20
Cancer3DCCL20(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601960   
Orphanet
MedgenCCL20
Genetic Testing Registry CCL20
NextProtP78556 [Medical]
TSGene6364
GENETestsCCL20
Huge Navigator CCL20 [HugePedia]
snp3D : Map Gene to Disease6364
BioCentury BCIQCCL20
ClinGenCCL20
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6364
Chemical/Pharm GKB GenePA35551
Clinical trialCCL20
Miscellaneous
canSAR (ICR)CCL20 (select the gene name)
Probes
Litterature
PubMed173 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCCL20
EVEXCCL20
GoPubMedCCL20
iHOPCCL20
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 30 14:55:22 CEST 2017

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