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CCL20 Gene(Protein Coding)

C-C Motif Chemokine Ligand 20

GCID:
GC02P227813
GIFtS:
61
Genes Participants
UDN Logo

Aliases for CCL20 Gene

Aliases for CCL20 Gene

  • C-C Motif Chemokine Ligand 20 2 3 5
  • Small Inducible Cytokine Subfamily A (Cys-Cys), Member 20 2 3
  • Liver And Activation-Regulated Chemokine 3 4
  • Macrophage Inflammatory Protein 3 Alpha 3 4
  • Chemokine (C-C Motif) Ligand 20 2 3
  • Small-Inducible Cytokine A20 3 4
  • CC Chemokine LARC 3 4
  • MIP-3-Alpha 3 4
  • SCYA20 3 4
  • MIP3A 3 4
  • LARC 3 4
  • Beta Chemokine Exodus-1 3
  • Beta-Chemokine Exodus-1 4
  • C-C Motif Chemokine 20 3
  • Exodus 3
  • MIP-3a 3
  • CKb4 3
  • ST38 3

External Ids for CCL20 Gene

Previous HGNC Symbols for CCL20 Gene

  • SCYA20

Previous GeneCards Identifiers for CCL20 Gene

  • GC02P226699
  • GC02P227410
  • GC02P228642
  • GC02P228881
  • GC02P228504
  • GC02P228386
  • GC02P228678
  • GC02P220520

Summaries for CCL20 Gene

Entrez Gene Summary for CCL20 Gene

  • This antimicrobial gene belongs to the subfamily of small cytokine CC genes. Cytokines are a family of secreted proteins involved in immunoregulatory and inflammatory processes. The CC cytokines are proteins characterized by two adjacent cysteines. The protein encoded by this gene displays chemotactic activity for lymphocytes and can repress proliferation of myeloid progenitors. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2014]

GeneCards Summary for CCL20 Gene

CCL20 (C-C Motif Chemokine Ligand 20) is a Protein Coding gene. Diseases associated with CCL20 include Bejel and Rheumatoid Arthritis. Among its related pathways are Bacterial infections in CF airways and Peptide ligand-binding receptors. GO annotations related to this gene include cytokine activity and chemokine activity.

UniProtKB/Swiss-Prot for CCL20 Gene

  • Acts as a ligand for C-C chemokine receptor CCR6. Signals through binding and activation of CCR6 and induces a strong chemotactic response and mobilization of intracellular calcium ions (PubMed:11352563, PubMed:11035086, PubMed:20068036). The ligand-receptor pair CCL20-CCR6 is responsible for the chemotaxis of dendritic cells (DC), effector/memory T-cells and B-cells and plays an important role at skin and mucosal surfaces under homeostatic and inflammatory conditions, as well as in pathology, including cancer and various autoimmune diseases (PubMed:21376174). CCL20 acts as a chemotactic factor that attracts lymphocytes and, slightly, neutrophils, but not monocytes (PubMed:9038201, PubMed:11352563). Involved in the recruitment of both the proinflammatory IL17 producing helper T-cells (Th17) and the regulatory T-cells (Treg) to sites of inflammation. Required for optimal migration of thymic natural regulatory T cells (nTregs) and DN1 early thymocyte progenitor cells (By similarity). C-terminal processed forms have been shown to be equally chemotactically active for leukocytes (PubMed:11035086). Positively regulates sperm motility and chemotaxis via its binding to CCR6 which triggers Ca2+ mobilization in the sperm which is important for its motility (PubMed:23765988, PubMed:25122636). Inhibits proliferation of myeloid progenitors in colony formation assays (PubMed:9129037). May be involved in formation and function of the mucosal lymphoid tissues by attracting lymphocytes and dendritic cells towards epithelial cells (By similarity). Possesses antibacterial activity towards E.coli ATCC 25922 and S.aureus ATCC 29213 (PubMed:12149255).

Gene Wiki entry for CCL20 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CCL20 Gene

Genomics for CCL20 Gene

Products:

  1. Regulatory Element

Regulatory Elements for CCL20 Gene

Enhancers for CCL20 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH02G227782 1.4 FANTOM5 Ensembl ENCODE 30.9 -30.5 -30526 1.7 PKNOX1 BACH1 BMI1 EBF1 RELA EGR1 POLR2A EED ETV6 RELB CCL20 AGFG1 SNRPGP8 LOC100533842
GH02G227805 1.6 FANTOM5 Ensembl ENCODE dbSUPER 15.4 -8.1 -8111 1.1 MTA2 BHLHE40 MAX EBF1 TBX21 JUND RAD51 POLR2A TARDBP IKZF1 CCL20 AGFG1 GC02P227805
GH02G227700 1.7 FANTOM5 Ensembl ENCODE dbSUPER 10.3 -111.0 -111026 4.0 PKNOX1 FOXA2 ZFP64 SIN3A FEZF1 RAD21 RARA RFX5 YY1 FOS CCL20 SLC19A3 GC02M227708 GC02P227657
GH02G227847 1.4 FANTOM5 ENCODE dbSUPER 11.3 +35.1 35059 2.2 RELA EGR1 CBX5 EED ETV6 RELB IKZF2 CREM ZNF680 MTA2 DAW1 TDGF1P2 CCL20 GC02P227844 GC02M227848
GH02G227839 1.2 FANTOM5 Ensembl ENCODE 11.5 +26.0 26042 0.6 KLF1 MTA2 NR2F1 NR3C1 GATAD2B EBF1 DPF2 RARA EED CEBPA CCL20 DAW1 AGFG1 GC02P227841 GC02P227817
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CCL20 on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the CCL20 gene promoter:

Genomic Location for CCL20 Gene

Chromosome:
2
Start:
227,813,842 bp from pter
End:
227,817,564 bp from pter
Size:
3,723 bases
Orientation:
Plus strand

Genomic View for CCL20 Gene

Genes around CCL20 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CCL20 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CCL20 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for CCL20 Gene

Proteins for CCL20 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for CCL20 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P78556-CCL20_HUMAN
    Recommended name:
    C-C motif chemokine 20
    Protein Accession:
    P78556
    Secondary Accessions:
    • Q53S51
    • Q99664

    Protein attributes for CCL20 Gene

    Size:
    96 amino acids
    Molecular mass:
    10762 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for CCL20 Gene

    Alternative splice isoforms for CCL20 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CCL20 Gene

Protein Expression for CCL20 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for CCL20 Gene

  • C-terminal processed forms which lack 1, 3 or 6 amino acids are produced by proteolytic cleavage after secretion from peripheral blood monocytes.

Other Protein References for CCL20 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • R&D Systems Antibodies for CCL20 (CCL20/MIP-3 alpha)

No data available for DME Specific Peptides for CCL20 Gene

Domains & Families for CCL20 Gene

Gene Families for CCL20 Gene

HGNC:

Protein Domains for CCL20 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for CCL20 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P78556

UniProtKB/Swiss-Prot:

CCL20_HUMAN :
  • Belongs to the intercrine beta (chemokine CC) family.
Family:
  • Belongs to the intercrine beta (chemokine CC) family.
genes like me logo Genes that share domains with CCL20: view

Function for CCL20 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Molecular function for CCL20 Gene

UniProtKB/Swiss-Prot Function:
Acts as a ligand for C-C chemokine receptor CCR6. Signals through binding and activation of CCR6 and induces a strong chemotactic response and mobilization of intracellular calcium ions (PubMed:11352563, PubMed:11035086, PubMed:20068036). The ligand-receptor pair CCL20-CCR6 is responsible for the chemotaxis of dendritic cells (DC), effector/memory T-cells and B-cells and plays an important role at skin and mucosal surfaces under homeostatic and inflammatory conditions, as well as in pathology, including cancer and various autoimmune diseases (PubMed:21376174). CCL20 acts as a chemotactic factor that attracts lymphocytes and, slightly, neutrophils, but not monocytes (PubMed:9038201, PubMed:11352563). Involved in the recruitment of both the proinflammatory IL17 producing helper T-cells (Th17) and the regulatory T-cells (Treg) to sites of inflammation. Required for optimal migration of thymic natural regulatory T cells (nTregs) and DN1 early thymocyte progenitor cells (By similarity). C-terminal processed forms have been shown to be equally chemotactically active for leukocytes (PubMed:11035086). Positively regulates sperm motility and chemotaxis via its binding to CCR6 which triggers Ca2+ mobilization in the sperm which is important for its motility (PubMed:23765988, PubMed:25122636). Inhibits proliferation of myeloid progenitors in colony formation assays (PubMed:9129037). May be involved in formation and function of the mucosal lymphoid tissues by attracting lymphocytes and dendritic cells towards epithelial cells (By similarity). Possesses antibacterial activity towards E.coli ATCC 25922 and S.aureus ATCC 29213 (PubMed:12149255).
UniProtKB/Swiss-Prot Induction:
By bacterial lipopolysaccharides (LPS), TNF and IFNG/IFN-gamma. Induced by phorbol myristate acetate (PMA) in U-937 cell line and bowes melanoma. Repressed by IL10/interleukin-10.

Gene Ontology (GO) - Molecular Function for CCL20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005125 cytokine activity IEA --
GO:0005515 protein binding IPI 17703191
GO:0008009 chemokine activity TAS,IBA --
GO:0031731 CCR6 chemokine receptor binding IDA 12081481
genes like me logo Genes that share ontologies with CCL20: view

Phenotypes for CCL20 Gene

GenomeRNAi human phenotypes for CCL20:
genes like me logo Genes that share phenotypes with CCL20: view

Animal Model Products

  • Taconic Biosciences Mouse Models for CCL20

CRISPR Products

miRNA for CCL20 Gene

miRTarBase miRNAs that target CCL20

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CCL20 Gene

Localization for CCL20 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CCL20 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 CCL20 gene
Compartment Confidence
extracellular 5
plasma membrane 2
nucleus 2
cytoskeleton 1
mitochondrion 1
cytosol 1
lysosome 1

Gene Ontology (GO) - Cellular Components for CCL20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space IBA,TAS --
GO:0005622 intracellular IEA --
genes like me logo Genes that share ontologies with CCL20: view

Pathways & Interactions for CCL20 Gene

genes like me logo Genes that share pathways with CCL20: view

Gene Ontology (GO) - Biological Process for CCL20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002548 monocyte chemotaxis IBA --
GO:0006935 chemotaxis IDA,TAS 20068036
GO:0006954 inflammatory response TAS,IBA --
GO:0006955 immune response TAS 10521347
GO:0007165 signal transduction TAS 9038201
genes like me logo Genes that share ontologies with CCL20: view

No data available for SIGNOR curated interactions for CCL20 Gene

Drugs & Compounds for CCL20 Gene

Products:

  1. Drug

(12) Drugs for CCL20 Gene - From: ClinicalTrials and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Antibodies Pharma 6394
Antibodies, Monoclonal Pharma 4039
Immunoglobulins Pharma 6394

(11) Additional Compounds for CCL20 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CCL20: view

Transcripts for CCL20 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for CCL20 Gene

(2) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(76) Selected AceView cDNA sequences:
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CCL20 Gene

Chemokine (C-C motif) ligand 20:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CCL20 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b
SP1: -
SP2: -
SP3:

Relevant External Links for CCL20 Gene

GeneLoc Exon Structure for
CCL20
ECgene alternative splicing isoforms for
CCL20

Expression for CCL20 Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CCL20 Gene

mRNA expression in normal human tissues for CCL20 Gene
mRNA expression by BioGPS for CCL20 GenemRNA expression by GTEx for CCL20 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CCL20 Gene

This gene is overexpressed in Minor Salivary Gland (x12.4), Lung (x6.9), and Liver (x5.5).

Protein differential expression in normal tissues from HIPED for CCL20 Gene

This gene is overexpressed in Islet of Langerhans (30.9), Pancreas (23.1), and Plasma (14.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CCL20 Gene



Protein tissue co-expression partners for CCL20 Gene

NURSA nuclear receptor signaling pathways regulating expression of CCL20 Gene:

CCL20

SOURCE GeneReport for Unigene cluster for CCL20 Gene:

Hs.75498

mRNA Expression by UniProt/SwissProt for CCL20 Gene:

P78556-CCL20_HUMAN
Tissue specificity: Expressed in the seminal plasma, endometrial fluid and follicular fluid (at protein level). Expressed predominantly in the liver, lymph nodes, appendix, peripheral blood lymphocytes, and fetal lung. Low levels seen in thymus, prostate, testis, small intestine and colon.

Evidence on tissue expression from TISSUES for CCL20 Gene

  • Liver(4.4)
  • Pancreas(4.2)
  • Intestine(3.4)
  • Lymph node(2.9)
  • Blood(2.6)
  • Lung(2.6)
  • Spleen(2.5)
  • Skin(2.3)
  • Gall bladder(2.1)
genes like me logo Genes that share expression patterns with CCL20: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for CCL20 Gene

Orthologs for CCL20 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CCL20 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia CCL20 34 35
  • 98.95 (n)
dog
(Canis familiaris)
 Mammalia CCL20 34 35
  • 83.16 (n)
cow
(Bos Taurus)
 Mammalia CCL20 34 35
  • 81.4 (n)
mouse
(Mus musculus)
 Mammalia Ccl20 34 16 35
  • 72.7 (n)
rat
(Rattus norvegicus)
 Mammalia Ccl20 34
  • 69.6 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia CCL20 35
  • 52 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia CCL20 35
  • 47 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves CCL20 34
  • 61.96 (n)
MIP-3ALPHA 35
  • 52 (a)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia CCL20 35
  • 47 (a)
 OneToOne
Species where no ortholog for CCL20 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)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CCL20 Gene

ENSEMBL:
Gene Tree for CCL20 (if available)
TreeFam:
Gene Tree for CCL20 (if available)

Paralogs for CCL20 Gene

(18) SIMAP similar genes for CCL20 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CCL20: view

No data available for Paralogs for CCL20 Gene

Variants for CCL20 Gene

Sequence variations from dbSNP and Humsavar for CCL20 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs1000637413 -- 227,817,189(+) CTTAT(C/G)TAATT utr-variant-3-prime
rs1000749225 -- 227,812,991(+) TCTTA(C/T)ACTGC upstream-variant-2KB
rs1000877730 -- 227,815,286(+) TCAAC(A/G)ACCTT intron-variant
rs1001591137 -- 227,817,907(+) TCAGG(C/T)ATCAC downstream-variant-500B
rs1001622432 -- 227,817,579(+) TTATA(A/T)CATTT downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for CCL20 Gene

Variant ID Type Subtype PubMed ID
nsv10221 CNV loss 18304495
nsv834562 CNV gain 17160897

Variation tolerance for CCL20 Gene

Residual Variation Intolerance Score: 66.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.24; 5.42% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CCL20 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CCL20

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CCL20 Gene

Disorders for CCL20 Gene

MalaCards: The human disease database

(9) MalaCards diseases for CCL20 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
bejel
  • njovera
rheumatoid arthritis
  • rheumatoid arthritis, progression of
pustulosis palmaris et plantaris
  • localized pustular psoriasis
stromal keratitis
listeria meningitis
  • meningitis, listeria
- elite association - COSMIC cancer census association via MalaCards
Search CCL20 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CCL20

Genetic Association Database (GAD)
CCL20
Human Genome Epidemiology (HuGE) Navigator
CCL20
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CCL20
genes like me logo Genes that share disorders with CCL20: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CCL20 Gene

Publications for CCL20 Gene

  1. Genomic organization of the CC chemokine mip-3alpha/CCL20/larc/ exodus/SCYA20, showing gene structure, splice variants, and chromosome localization. (PMID: 11352563) Nelson R.T. … McColl S.R. (Genomics 2001) 2 3 4 22 64
  2. Molecular cloning of a novel human CC chemokine liver and activation- regulated chemokine (LARC) expressed in liver. Chemotactic activity for lymphocytes and gene localization on chromosome 2. (PMID: 9038201) Hieshima K. … Nomiyama H. (J. Biol. Chem. 1997) 2 3 4 22 64
  3. The structure of human macrophage inflammatory protein-3alpha /CCL20. Linking antimicrobial and CC chemokine receptor-6-binding activities with human beta-defensins. (PMID: 12149255) Hoover D.M. … Lubkowski J. (J. Biol. Chem. 2002) 3 4 22 64
  4. Regulated production and molecular diversity of human liver and activation-regulated chemokine/macrophage inflammatory protein-3 alpha from normal and transformed cells. (PMID: 11035086) Schutyser E. … Van Damme J. (J. Immunol. 2000) 3 4 22 64
  5. A role for the chemokine receptor CCR6 in mammalian sperm motility and chemotaxis. (PMID: 23765988) Caballero-Campo P. … Gerton G.L. (J. Cell. Physiol. 2014) 3 4 64

Products for CCL20 Gene

Sources for CCL20 Gene

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