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

Gene ID: 12458, updated on 13-Dec-2022

Summary

Official Symbol
Ccr6provided by MGI
Official Full Name
chemokine (C-C motif) 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 immune system development; leukocyte migration; and regulation of cell motility. 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, Apr 2022]
Expression
Biased expression in spleen adult (RPKM 9.8), mammary gland adult (RPKM 4.1) and 5 other tissues See more
Orthologs
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Genomic context

See Ccr6 in Genome Data Viewer
Location:
17; 17 A1
Exon count:
9
Annotation release Status Assembly Chr Location
109 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 ribonuclease T2A Neighboring gene centrosomal protein 43 Neighboring gene predicted gene, 33799 Neighboring gene predicted gene 8465 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)
  • Targeted (7)  1 citation
  • Endonuclease-mediated (4) 

Pathways from PubChem

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
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 IDA
Inferred from Direct Assay
more info
PubMed 
enables C-C chemokine receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables G protein-coupled receptor activity IEA
Inferred from Electronic Annotation
more info
 
enables chemokine receptor activity IEA
Inferred from Electronic Annotation
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 
acts_upstream_of_or_within G protein-coupled receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in G protein-coupled receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in T cell migration IDA
Inferred from Direct Assay
more info
PubMed 
involved_in calcium-mediated signaling ISO
Inferred from Sequence Orthology
more info
 
involved_in cell chemotaxis ISO
Inferred from Sequence Orthology
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
PubMed 
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of dendritic cell chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of dendritic cell chemotaxis ISO
Inferred from Sequence Orthology
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 
acts_upstream_of_or_within signal transduction IEA
Inferred from Electronic Annotation
more info
 
involved_in thymocyte migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
 
located_in external side of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
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 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

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
    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
    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
    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
    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
    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
    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
    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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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
    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
    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
    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
    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
    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
    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
    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
    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
    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