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

Summary

Official Symbol: Ccl20provided by MGI
Official Full Name: C-C motif chemokine 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 active in extracellular space. Is expressed in liver and trachea epithelium. Orthologous to human CCL20 (C-C motif chemokine ligand 20). [provided by Alliance of Genome Resources, Dec 2024]
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
RS_2024_02	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?

Atg5 deficiency in macrophages protects against kidney fibrosis via the CCR6-CCL20 axis.
Title: Atg5 deficiency in macrophages protects against kidney fibrosis via the CCR6-CCL20 axis.
CCL20 inhibition for treating inflammation in ankylosing spondylitis.
Title: CCL20 inhibition for treating inflammation in ankylosing spondylitis.
PPARdelta dysregulation of CCL20/CCR6 axis promotes gastric adenocarcinoma carcinogenesis by remodeling gastric tumor microenvironment.
Title: PPARδ dysregulation of CCL20/CCR6 axis promotes gastric adenocarcinoma carcinogenesis by remodeling gastric tumor microenvironment.
Neutrophils for Revascularization Require Activation of CCR6 and CCL20 by TNFalpha.
Title: Neutrophils for Revascularization Require Activation of CCR6 and CCL20 by TNFα.
The CCR6/CCL20 axis expands RORgammat[+] Tregs to protect from glomerulonephritis.
Title: The CCR6/CCL20 axis expands RORγt(+) Tregs to protect from glomerulonephritis.
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.

Submit: New GeneRIF Correction See all GeneRIFs (50)

Variation

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Alleles

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

Endonuclease-mediated (6)
Targeted (2)

General gene information

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Markers

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

AB015136 (e-PCR)
- UniSTS:178425

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
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	IEA Inferred from Electronic Annotation more info
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 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	ISO Inferred from Sequence Orthology more info
involved_in calcium-mediated signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in cell chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
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	IEA Inferred from Electronic Annotation more info
involved_in killing of cells of another organism	ISO Inferred from Sequence Orthology more info
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
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 space	IEA Inferred from Electronic Annotation more info
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; chemokine (C-C motif) ligand 20; 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/TrEMBL

F8WHA7, 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

F8WHA7, Q54AI7

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 ...