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

    Gene ID: 12458, updated on 9-Dec-2024

    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, Dec 2024]
    Expression
    Biased expression in spleen adult (RPKM 9.8), mammary gland adult (RPKM 4.1) and 5 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Ccr6 in Genome Data Viewer
    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_000083.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_41760 Neighboring gene ribonuclease T2A Neighboring gene STARR-positive B cell enhancer mm9_chr17:8358162-8358463 Neighboring gene centrosomal protein 43 Neighboring gene STARR-positive B cell enhancer ABC_E7487 Neighboring gene STARR-seq mESC enhancer starr_41762 Neighboring gene predicted gene, 33799 Neighboring gene predicted gene 8465 Neighboring gene STARR-positive B cell enhancer ABC_E1188 Neighboring gene RIKEN cDNA 4930506C21 gene Neighboring gene mitochondrial pyruvate carrier 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (5) 
    • Targeted (7)  1 citation

    Pathways from PubChem

    General gene information

    Markers

    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

    Preferred Names
    C-C chemokine receptor type 6
    Names
    chemokine (C-C motif) receptor 6

    NCBI Reference Sequences (RefSeq)

    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_001190333.1NP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    2. NM_001190334.1NP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    3. NM_001190335.1NP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    4. NM_001190336.1NP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    5. NM_001190337.1NP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    6. NM_001190338.1NP_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:96349
      7tm_1; 7 transmembrane receptor (rhodopsin family)
      cl21561
      Location:88219
      7tm_4; Olfactory receptor
    7. NM_009835.4NP_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:39319
      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

    1. NC_000083.7 Reference GRCm39 C57BL/6J

      Range
      8454875..8477353
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006523292.5XP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    2. XM_006523286.5XP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    3. XM_036160286.1XP_036016179.1  C-C chemokine receptor type 6 isoform X1

      UniProtKB/Swiss-Prot
      O54689
      UniProtKB/TrEMBL
      Q542B6, Q9R1V0
      Conserved Domains (1) summary
      cd15172
      Location:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    4. XM_006523288.5XP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    5. XM_036160287.1XP_036016180.1  C-C chemokine receptor type 6 isoform X1

      UniProtKB/Swiss-Prot
      O54689
      UniProtKB/TrEMBL
      Q542B6, Q9R1V0
      Conserved Domains (1) summary
      cd15172
      Location:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    6. XM_017317220.3XP_017172709.1  C-C chemokine receptor type 6 isoform X1

      UniProtKB/Swiss-Prot
      O54689
      UniProtKB/TrEMBL
      Q542B6, Q9R1V0
      Conserved Domains (1) summary
      cd15172
      Location:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    7. XM_011246186.4XP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    8. XM_011246188.3XP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
    9. XM_006523291.3XP_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:39319
      7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors