Ccl20 chemokine (C-C motif) ligand 20 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ccl20provided by MGI
Official Full Name: chemokine (C-C motif) ligand 20provided by MGI
Primary source: MGI:MGI:1329031
See related: Ensembl:ENSMUSG00000026166 AllianceGenome:MGI:1329031
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: CKb4; LARC; ST38; MIP3A; MIP-3A; Scya20; MIP-3[a]; exodus-1
Summary: Enables CCR6 chemokine receptor binding activity and cytokine activity. Involved in chemotaxis and thymocyte migration. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Orthologous to human CCL20 (C-C motif chemokine ligand 20). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in duodenum adult (RPKM 6.4), small intestine adult (RPKM 4.1) and 3 other tissues See more
Orthologs: human all
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Genomic context

Location:: 1 C5; 1 42.69 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	1	NC_000067.7 (83094487..83096888)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	1	NC_000067.6 (83116766..83119167)

Chromosome 1 - NC_000067.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Chemokine CCL20 promotes the paclitaxel resistance of CD44(+)CD117(+) cells via the Notch1 signaling pathway in ovarian cancer.
Title: Chemokine CCL20 promotes the paclitaxel resistance of CD44(+)CD117(+) cells via the Notch1 signaling pathway in ovarian cancer.
Treatment with shCCL20-CCR6 nanodendriplexes and human mesenchymal stem cell therapy improves pathology in mice with repeated traumatic brain injury.
Title: Treatment with shCCL20-CCR6 nanodendriplexes and human mesenchymal stem cell therapy improves pathology in mice with repeated traumatic brain injury.
NLRP6 exerts a protective role via NF-kB with involvement of CCL20 in a mouse model of alcoholic hepatitis.
Title: NLRP6 exerts a protective role via NF-kB with involvement of CCL20 in a mouse model of alcoholic hepatitis.
The behavioural and neuropathologic sexual dimorphism and absence of MIP-3alpha in tau P301S mouse model of Alzheimer's disease.
Title: The behavioural and neuropathologic sexual dimorphism and absence of MIP-3α in tau P301S mouse model of Alzheimer's disease.
Tumor-derived CCL20 affects B16 melanoma growth in mice.
Title: Tumor-derived CCL20 affects B16 melanoma growth in mice.
CCL20 is a novel ligand for the scavenging atypical chemokine receptor 4.
Title: CCL20 is a novel ligand for the scavenging atypical chemokine receptor 4.
Traumatic brain injury-induced retinal pathology is mediated in part by CCL20 in a CCR6-dependent manner.
Title: CCL20-CCR6 axis modulated traumatic brain injury-induced visual pathologies.
These data suggest that CCR6 is crucially involved in adaptive but not in innate immunity-driven arthritis. CCR6 or its chemokine ligand CCL20 might represent a possible new target for the treatment of Rheumatoid arthritis (RA)
Title: CCR6 controls autoimmune but not innate immunity-driven experimental arthritis.
Study provides evidence that CCL20 expression and its mRNA level are regulated by TDAG8.
Title: The proton-sensing G protein-coupled receptor T-cell death-associated gene 8 (TDAG8) shows cardioprotective effects against myocardial infarction.
Obesity-induced IL-6 shifts macrophage polarization towards tumor-promoting macrophages that produce the CCL-20 in the colitis-associated colorectal cancer (CAC) microenvironment. CCL-20 promotes CAC progression by recruiting CCR6-expressing B-cells and gammadelta T cells via chemotaxis.
Title: Obesity exacerbates colitis-associated cancer via IL-6-regulated macrophage polarisation and CCL-20/CCR-6-mediated lymphocyte recruitment.

Submit: New GeneRIF Correction See all GeneRIFs (45)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2)
Endonuclease-mediated (3)

General gene information

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Markers

Scya20 (e-PCR), detects polymorphism
- UniSTS:158757

AB015136 (e-PCR)
- UniSTS:178425

Homology

Homologs of the Ccl20 gene: The Ccl20 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, and chicken.
Orthologs from Annotation Pipeline: 308 organisms have orthologs with human gene Ccl20
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables CCR chemokine receptor binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables CCR6 chemokine receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables CCR6 chemokine receptor binding	ISO Inferred from Sequence Orthology more info
enables chemokine activity	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables chemokine activity	ISO Inferred from Sequence Orthology more info
enables cytokine activity	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in G protein-coupled receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in T cell migration	IDA Inferred from Direct Assay more info	PubMed
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide	ISO Inferred from Sequence Orthology more info
involved_in calcium-mediated signaling using intracellular calcium source	ISO Inferred from Sequence Orthology more info
involved_in cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in cellular response to interleukin-1	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in cellular response to tumor necrosis factor	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in cellular response to type II interferon	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in chemokine-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in immune response	IEA Inferred from Electronic Annotation more info
involved_in inflammatory response	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in killing of cells of another organism	ISO Inferred from Sequence Orthology more info
involved_in lymphocyte chemotaxis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in monocyte chemotaxis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in neutrophil chemotaxis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in positive regulation of ERK1 and ERK2 cascade	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in positive regulation of GTPase activity	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within positive regulation of T cell migration	ISO Inferred from Sequence Orthology more info	PubMed
involved_in positive regulation of interleukin-1 alpha production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of nitric-oxide synthase biosynthetic process	ISO Inferred from Sequence Orthology more info
NOT involved_in regulation of T cell cytokine production	IDA Inferred from Direct Assay more info	PubMed
NOT involved_in regulation of T-helper 17 cell differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in thymocyte migration	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in extracellular region	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in extracellular space	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: C-C motif chemokine 20

Names: CC chemokine LARC; CC chemokine ST38; MIP-3-alpha; beta-chemokine exodus-1; liver and activation-regulated chemokine; macrophage inflammatory protein 3 alpha; small inducible cytokine subfamily A20; small-inducible cytokine A20

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

NM_001159738.1 → NP_001153210.1 C-C motif chemokine 20 isoform 2 precursor

See identical proteins and their annotated locations for NP_001153210.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is 1 aa shorter compared to isoform 1.

Source sequence(s)

BC028504, BY026108

Consensus CDS

CCDS78638.1

UniProtKB/Swiss-Prot

O89093

UniProtKB/TrEMBL

A0A6P5QI09, Q642U4

Related

ENSMUSP00000139923.2, ENSMUST00000186832.2

Conserved Domains (1) summary

cd01119
Location:30 → 90

Chemokine_CC_DCCL; subgroup of the Chemokine_CC subgroup based on the presence of a DCCL motif involving the two N-terminal cysteine residues; includes a number of small inducible cytokines capable of reversibly inhibiting normal hematopoietic progenitor proliferation by ...
NM_016960.2 → NP_058656.1 C-C motif chemokine 20 isoform 1 precursor

See identical proteins and their annotated locations for NP_058656.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

BC028504, BX525886, BY026108

Consensus CDS

CCDS35632.1

UniProtKB/Swiss-Prot

O89093, Q9Z1X3

UniProtKB/TrEMBL

A0A6P5QP26, Q54AI7, Q642U4

Related

ENSMUSP00000109064.3, ENSMUST00000113437.9

Conserved Domains (1) summary

cd01119
Location:31 → 91

Chemokine_CC_DCCL; subgroup of the Chemokine_CC subgroup based on the presence of a DCCL motif involving the two N-terminal cysteine residues; includes a number of small inducible cytokines capable of reversibly inhibiting normal hematopoietic progenitor proliferation by ...