Ccr6 C-C motif chemokine receptor 6 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ccr6provided by MGI
Official Full Name: C-C motif chemokine receptor 6provided by MGI
Primary source: MGI:MGI:1333797
See related: Ensembl:ENSMUSG00000040899 AllianceGenome:MGI:1333797
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: CCR-6; KY411; Cmkbr6; CC-CKR-6
Summary: Enables C-C chemokine binding activity and C-C chemokine receptor activity. Involved in several processes, including T cell differentiation in thymus; isotype switching to IgA isotypes; and positive regulation of flagellated sperm motility involved in capacitation. Located in external side of plasma membrane; sperm plasma membrane; and sperm principal piece. Is expressed in several structures, including central nervous system; gut; immune system; male reproductive gland or organ; and retina. Orthologous to human CCR6 (C-C motif chemokine receptor 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in spleen adult (RPKM 9.8), mammary gland adult (RPKM 4.1) and 5 other tissues See more
Orthologs: human all
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Genomic context

Location:: 17 A1; 17 4.9 cM

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	17	NC_000083.7 (8454875..8477353)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	17	NC_000083.6 (8236041..8258519)

Chromosome 17 - NC_000083.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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?

CCL18 aggravates atherosclerosis by inducing CCR6-dependent T-cell influx and polarization.
Title: CCL18 aggravates atherosclerosis by inducing CCR6-dependent T-cell influx and polarization.
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.
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.
Infiltrated IL-17A-producing gamma delta T cells play a protective role in sepsis-induced liver injury and are regulated by CCR6 and gut commensal microbes.
Title: Infiltrated IL-17A-producing gamma delta T cells play a protective role in sepsis-induced liver injury and are regulated by CCR6 and gut commensal microbes.
The CCR6/CCL20 axis expands RORgammat[+] Tregs to protect from glomerulonephritis.
Title: The CCR6/CCL20 axis expands RORγt(+) Tregs to protect from glomerulonephritis.
Patched 1 and C-C Motif Chemokine Receptor 6 Distinguish Heterogeneous T Helper 17 Subsets in Colitic Lamina Propria.
Title: Patched 1 and C-C Motif Chemokine Receptor 6 Distinguish Heterogeneous T Helper 17 Subsets in Colitic Lamina Propria.
Regulatory T Cells Require CCR6 for Skin Migration and Local Suppression of Vitiligo.
Title: Regulatory T Cells Require CCR6 for Skin Migration and Local Suppression of Vitiligo.
TFR Cells Express Functional CCR6 But It Is Dispensable for Their Development and Localization During Splenic Humoral Immune Responses.
Title: T(FR) Cells Express Functional CCR6 But It Is Dispensable for Their Development and Localization During Splenic Humoral Immune Responses.
CCR6 expression reduces mouse survival upon malarial challenge with Plasmodium berghei NK65 strain.
Title: CCR6 expression reduces mouse survival upon malarial challenge with Plasmodium berghei NK65 strain.

Submit: New GeneRIF Correction See all GeneRIFs (95)

Variation

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Alleles

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

Endonuclease-mediated (5)
Targeted (7) 1 citation

General gene information

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Markers

Ccr6 (e-PCR), detects polymorphism
- UniSTS:495939

RH130928 (e-PCR)
- UniSTS:214212

NoName (e-PCR)
- UniSTS:484837

Gene Ontology Provided by MGI

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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DN2 thymocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in DN3 thymocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in T cell migration	IDA Inferred from Direct Assay more info	PubMed
involved_in calcium-mediated signaling	IBA Inferred from Biological aspect of Ancestor 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	IBA Inferred from Biological aspect of Ancestor 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 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	ISO Inferred from Sequence Orthology more info
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in isotype switching to IgA isotypes	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in leukocyte migration involved in inflammatory response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in lymphocyte migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cytosolic calcium ion concentration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cytosolic calcium ion concentration	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cytosolic calcium ion concentration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dendritic cell chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of dendritic cell chemotaxis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of dendritic cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial cell migration	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of epithelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of flagellated sperm motility involved in capacitation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of flagellated sperm motility involved in capacitation	ISO Inferred from Sequence Orthology more info
involved_in regulation of T cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
NOT involved_in regulation of T-helper 17 cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in thymocyte migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in thymocyte migration	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in cell surface	ISO Inferred from Sequence Orthology more info
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in external side of plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in sperm flagellum	IDA Inferred from Direct Assay more info	PubMed
located_in sperm flagellum	ISO Inferred from Sequence Orthology more info
located_in sperm midpiece	IEA Inferred from Electronic Annotation more info
located_in sperm midpiece	ISO Inferred from Sequence Orthology more info
located_in sperm plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in sperm plasma membrane	ISO Inferred from Sequence Orthology more info
located_in sperm principal piece	IDA Inferred from Direct Assay more info	PubMed
located_in sperm principal piece	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: C-C chemokine receptor type 6

Names: chemokine (C-C motif) receptor 6

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_001190333.1 → NP_001177262.1 C-C chemokine receptor type 6 isoform A

See identical proteins and their annotated locations for NP_001177262.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 through 6 encode the same protein (isoform A).

Source sequence(s)

AC164431

Consensus CDS

CCDS28381.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Related

ENSMUSP00000131153.3, ENSMUST00000164411.10

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
NM_001190334.1 → NP_001177263.1 C-C chemokine receptor type 6 isoform A

See identical proteins and their annotated locations for NP_001177263.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1 through 6 encode the same protein (isoform A).

Source sequence(s)

AC164431

Consensus CDS

CCDS28381.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Related

ENSMUSP00000135945.2, ENSMUST00000180103.3

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
NM_001190335.1 → NP_001177264.1 C-C chemokine receptor type 6 isoform A

See identical proteins and their annotated locations for NP_001177264.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 1. Variants 1 through 6 encode the same protein (isoform A).

Source sequence(s)

AC164431

Consensus CDS

CCDS28381.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Related

ENSMUSP00000137249.2, ENSMUST00000177568.9

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
NM_001190336.1 → NP_001177265.1 C-C chemokine receptor type 6 isoform A

See identical proteins and their annotated locations for NP_001177265.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) differs in the 5' UTR, compared to variant 1. Variants 1 through 6 encode the same protein (isoform A).

Source sequence(s)

AC164431

Consensus CDS

CCDS28381.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Related

ENSMUSP00000128559.3, ENSMUST00000166348.10

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
NM_001190337.1 → NP_001177266.1 C-C chemokine receptor type 6 isoform A

See identical proteins and their annotated locations for NP_001177266.1

Status: VALIDATED

Description

Transcript Variant: This variant (6) differs in the 5' UTR, compared to variant 1. Variants 1 through 6 encode the same protein (isoform A).

Source sequence(s)

AC164431

Consensus CDS

CCDS28381.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Related

ENSMUSP00000128529.3, ENSMUST00000167956.10

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
NM_001190338.1 → NP_001177267.1 C-C chemokine receptor type 6 isoform B

See identical proteins and their annotated locations for NP_001177267.1

Status: VALIDATED

Description

Transcript Variant: This variant (7) differs in the 5' UTR and 5' coding region and uses an alternate in-frame start codon, compared to variant 1. The resulting protein (isoform B) has a distinct N-terminus and is longer than isoform A.

Source sequence(s)

AC164431

UniProtKB/TrEMBL

Q9R1V0

Conserved Domains (2) summary

pfam00001
Location:96 → 349

7tm_1; 7 transmembrane receptor (rhodopsin family)

cl21561
Location:88 → 219

7tm_4; Olfactory receptor
NM_009835.4 → NP_033965.1 C-C chemokine receptor type 6 isoform A

See identical proteins and their annotated locations for NP_033965.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the shorter isoform (A).

Source sequence(s)

AC164431

Consensus CDS

CCDS28381.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Related

ENSMUSP00000095029.2, ENSMUST00000097418.8

Conserved Domains (1) summary

cd15172
Location:39 → 319

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_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000083.7 Reference GRCm39 C57BL/6J

Range

8454875..8477353

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006523292.5 → XP_006523355.1 C-C chemokine receptor type 6 isoform X1

See identical proteins and their annotated locations for XP_006523355.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
XM_006523286.5 → XP_006523349.1 C-C chemokine receptor type 6 isoform X1

See identical proteins and their annotated locations for XP_006523349.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
XM_036160286.1 → XP_036016179.1 C-C chemokine receptor type 6 isoform X1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
XM_006523288.5 → XP_006523351.1 C-C chemokine receptor type 6 isoform X1

See identical proteins and their annotated locations for XP_006523351.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
XM_036160287.1 → XP_036016180.1 C-C chemokine receptor type 6 isoform X1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
XM_017317220.3 → XP_017172709.1 C-C chemokine receptor type 6 isoform X1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
XM_011246186.4 → XP_011244488.1 C-C chemokine receptor type 6 isoform X1

See identical proteins and their annotated locations for XP_011244488.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
XM_011246188.3 → XP_011244490.1 C-C chemokine receptor type 6 isoform X1

See identical proteins and their annotated locations for XP_011244490.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
XM_006523291.3 → XP_006523354.1 C-C chemokine receptor type 6 isoform X1

See identical proteins and their annotated locations for XP_006523354.1

UniProtKB/Swiss-Prot

O54689

UniProtKB/TrEMBL

Q542B6, Q9R1V0

Conserved Domains (1) summary

cd15172
Location:39 → 319

7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors