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CCR6 C-C motif chemokine receptor 6 [ Homo sapiens (human) ]

Gene ID: 1235, updated on 11-Apr-2024

Summary

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Official Symbol
CCR6provided by HGNC
Official Full Name
C-C motif chemokine receptor 6provided by HGNC
Primary source
HGNC:HGNC:1607
See related
Ensembl:ENSG00000112486 MIM:601835; AllianceGenome:HGNC:1607
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
BN-1; DCR2; DRY6; CCR-6; CD196; CKRL3; GPR29; CKR-L3; CMKBR6; GPRCY4; STRL22; CC-CKR-6; C-C CKR-6
Summary
This gene encodes a member of the beta chemokine receptor family, which is predicted to be a seven transmembrane protein similar to G protein-coupled receptors. The gene is preferentially expressed by immature dendritic cells and memory T cells. The ligand of this receptor is macrophage inflammatory protein 3 alpha (MIP-3 alpha). This receptor has been shown to be important for B-lineage maturation and antigen-driven B-cell differentiation, and it may regulate the migration and recruitment of dentritic and T cells during inflammatory and immunological responses. Alternatively spliced transcript variants that encode the same protein have been described for this gene. [provided by RefSeq, Jul 2008]
Expression
Biased expression in lymph node (RPKM 8.0), appendix (RPKM 6.0) and 13 other tissues See more
Orthologs
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Genomic context

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See CCR6 in Genome Data Viewer
Location:
6q27
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (167111795..167139141)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (168494454..168521816)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (167525283..167552629)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25444 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17787 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17788 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17789 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17790 Neighboring gene microRNA 3939 Neighboring gene centrosomal protein 43 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25445 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25446 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25447 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25448 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:167493737-167494237 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25449 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25450 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25451 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25452 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25453 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25454 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25455 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:167532493-167532993 Neighboring gene uncharacterized LOC107986672 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25456 Neighboring gene uncharacterized LOC112267970 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:167556216-167557144 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:167557145-167558073 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:167576665-167577653 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:167578457-167579656 Neighboring gene uncharacterized LOC105378123 Neighboring gene G protein-coupled receptor 31

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. CCR6 activation links innate immune responses to mucosa-associated lymphoid tissue lymphoma development. Korona B, et al. Haematologica, 2022 Jun 1. PMID 35142152, Free PMC Article
  2. Reduced CCR6(+)IL-17A(+)Treg Cells in Blood and CCR6-Dependent Accumulation of IL-17A(+)Treg Cells in Lungs of Patients With Allergic Asthma. Shen X, et al. Front Immunol, 2021. PMID 34497608, Free PMC Article
  3. A Functional Variant rs3093023 in CCR6 Is Associated With IgA Nephropathy by Regulating Th17 Cells in a North Han Chinese Population. Zhang YM, et al. Front Immunol, 2021. PMID 33717080, Free PMC Article
  4. CC chemokine receptor 6 (CCR6) in the pathogenesis of systemic lupus erythematosus. Lee AY, et al. Immunol Cell Biol, 2020 Nov. PMID 32634857
  5. Recruitment of CCR6(+ ) Foxp3(+) regulatory gastric infiltrating lymphocytes in Helicobacter pylori gastritis. Wu YY, et al. Helicobacter, 2019 Feb. PMID 30412323

See all (205) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Pro-Fibrotic Effects of CCL18 on Human Lung Fibroblasts Are Mediated via CCR6.
    Title: Pro-Fibrotic Effects of CCL18 on Human Lung Fibroblasts Are Mediated via CCR6.
  2. Role of the CCL20/CCR6 axis in tubular epithelial cell injury: Kidney-specific translational insights from acute kidney injury to chronic kidney disease.
    Title: Role of the CCL20/CCR6 axis in tubular epithelial cell injury: Kidney-specific translational insights from acute kidney injury to chronic kidney disease.
  3. Increased gene expression of CCR6 and RORgammat in peripheral blood cells of rheumatoid arthritis patients and their correlation with anti-cyclic citrullinated peptide and disease activity.
    Title: Increased gene expression of CCR6 and RORγt in peripheral blood cells of rheumatoid arthritis patients and their correlation with anti-cyclic citrullinated peptide and disease activity.
  4. Clinical Significance of the Pre-Transplant CXCR3 and CCR6 Expression on T Cells In Kidney Graft Recipients.
    Title: Clinical Significance of the Pre-Transplant CXCR3 and CCR6 Expression on T Cells In Kidney Graft Recipients.
  5. SMAD4 Suppresses Colitis-associated Carcinoma Through Inhibition of CCL20/CCR6-mediated Inflammation.
    Title: SMAD4 Suppresses Colitis-associated Carcinoma Through Inhibition of CCL20/CCR6-mediated Inflammation.
  6. CCR6 activation links innate immune responses to mucosa-associated lymphoid tissue lymphoma development.
    Title: CCR6 activation links innate immune responses to mucosa-associated lymphoid tissue lymphoma development.
  7. rs9459874 and rs1012656 in CCR6/FGFR1OP confer susceptibility to primary biliary cholangitis.
    Title: rs9459874 and rs1012656 in CCR6/FGFR1OP confer susceptibility to primary biliary cholangitis.
  8. Glycogen synthase kinase 3beta/CCR6-positive bone marrow cells correlate with disease activity in multicentric Castleman disease-TAFRO.
    Title: Glycogen synthase kinase 3β/CCR6-positive bone marrow cells correlate with disease activity in multicentric Castleman disease-TAFRO.
  9. Human prostate cancer bone metastases have an actionable immunosuppressive microenvironment.
    Title: Human prostate cancer bone metastases have an actionable immunosuppressive microenvironment.
  10. Amino terminal recognition by a CCR6 chemokine receptor antibody blocks CCL20 signaling and IL-17 expression via beta-arrestin.
    Title: Amino terminal recognition by a CCR6 chemokine receptor antibody blocks CCL20 signaling and IL-17 expression via β-arrestin.
Submit: New GeneRIF Correction See all GeneRIFs (165)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A regulatory variant in CCR6 is associated with rheumatoid arthritis susceptibility.
EBI GWAS Catalog
Amerindian-specific regions under positive selection harbour new lipid variants in Latinos.
EBI GWAS Catalog
Fucosyltransferase 2 (FUT2) non-secretor status is associated with Crohn's disease.
EBI GWAS Catalog
Genetics of rheumatoid arthritis contributes to biology and drug discovery.
EBI GWAS Catalog
Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease.
EBI GWAS Catalog
Genome-wide association study for vitiligo identifies susceptibility loci at 6q27 and the MHC.
EBI GWAS Catalog
Genome-wide association study meta-analysis identifies seven new rheumatoid arthritis risk loci.
EBI GWAS Catalog
Genome-wide association study of autistic-like traits in a general population study of young adults.
EBI GWAS Catalog
Genome-wide association study of Crohn's disease in Koreans revealed three new susceptibility loci and common attributes of genetic susceptibility across ethnic populations.
EBI GWAS Catalog
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
EBI GWAS Catalog
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
EBI GWAS Catalog
Novel risk loci for rheumatoid arthritis in Han Chinese and congruence with risk variants in Europeans.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 upregulates the expression of chemokine (C-C motif) receptor 6 (CCR6) in human B cells PubMed
env HIV-1 gp120 interactions with CXCR4 and CCR5 lead to the cross-desensitization of CCR6 and CCR7; this gp120-induced inhibition is strictly dependent on CXCR4 or CCR5 and lipid rafts but not on CD4 or V(H)3-expressing BCR PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Potential readthrough

Included gene: CEP43

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables C-C chemokine binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables C-C chemokine binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables C-C chemokine binding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables C-C chemokine receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables C-C chemokine receptor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables C-C chemokine receptor activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables chemokine receptor activity TAS
Traceable Author Statement
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables signaling receptor activity TAS
Traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in DN2 thymocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in DN3 thymocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in T cell migration ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in calcium-mediated signaling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in calcium-mediated signaling IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in cell chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell chemotaxis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in cellular defense response TAS
Traceable Author Statement
more info
 PubMed 
involved_in chemokine-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in chemotaxis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in chemotaxis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in dendritic cell chemotaxis TAS
Traceable Author Statement
more info
 PubMed 
involved_in humoral immune response TAS
Traceable Author Statement
more info
 PubMed 
involved_in immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in isotype switching to IgA isotypes ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in leukocyte migration involved in inflammatory response ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in lymphocyte migration ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of cytosolic calcium ion concentration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of dendritic cell chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of flagellated sperm motility involved in capacitation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of T cell migration ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in signal transduction TAS
Traceable Author Statement
more info
 PubMed 
involved_in thymocyte migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in thymocyte migration ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  
located_in sperm flagellum IDA
Inferred from Direct Assay
more info
 PubMed 
located_in sperm midpiece IDA
Inferred from Direct Assay
more info
 PubMed 
located_in sperm plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in sperm principal piece IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
C-C chemokine receptor type 6
Names
G protein-coupled receptor 29
LARC receptor
chemokine (C-C motif) receptor 6
chemokine (C-C) receptor 6
chemokine receptor-like 3
seven-transmembrane receptor, lymphocyte, 22

NCBI Reference Sequences (RefSeq)

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NEW Try the new Transcript table

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)

  1. NM_001394582.1 → NP_001381511.1  C-C chemokine receptor type 6

    Status: REVIEWED

    Source sequence(s)
    AL121935
    Consensus CDS
    CCDS5298.1
    UniProtKB/Swiss-Prot
    E1P5C6, P51684, P78553, Q92846
    UniProtKB/TrEMBL
    A8KAF0
    Related
    ENSP00000339393.4, ENST00000349984.6
    Conserved Domains (1) summary
    cd15172
    Location:47 → 327
    7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

  2. NM_004367.6 → NP_004358.2  C-C chemokine receptor type 6

    See identical proteins and their annotated locations for NP_004358.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR compared to variant 2. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AL121935, CD692892, DN996219
    Consensus CDS
    CCDS5298.1
    UniProtKB/Swiss-Prot
    E1P5C6, P51684, P78553, Q92846
    UniProtKB/TrEMBL
    A8KAF0
    Related
    ENSP00000383715.2, ENST00000400926.5
    Conserved Domains (1) summary
    cd15172
    Location:47 → 327
    7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

  3. NM_031409.4 → NP_113597.2  C-C chemokine receptor type 6

    See identical proteins and their annotated locations for NP_113597.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) is the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AL121935, BC037960, DA645096
    Consensus CDS
    CCDS5298.1
    UniProtKB/Swiss-Prot
    E1P5C6, P51684, P78553, Q92846
    UniProtKB/TrEMBL
    A8KAF0
    Related
    ENSP00000343952.5, ENST00000341935.10
    Conserved Domains (1) summary
    cd15172
    Location:47 → 327
    7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    167111795..167139141
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    168494454..168521816
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P51684.2 GenPept UniProtKB/Swiss-Prot:P51684

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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