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Ccr6 C-C motif chemokine receptor 6 [ Rattus norvegicus (Norway rat) ]

Gene ID: 308163, updated on 11-Apr-2024

Summary

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Official Symbol
Ccr6provided by RGD
Official Full Name
C-C motif chemokine receptor 6provided by RGD
Primary source
RGD:1308562
See related
Ensembl:ENSRNOG00000012964 AllianceGenome:RGD:1308562
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable C-C chemokine binding activity and C-C chemokine receptor activity. Involved in positive regulation of cytosolic calcium ion concentration; positive regulation of dendritic cell chemotaxis; and positive regulation of epithelial cell migration. Predicted to be located in cell surface; sperm flagellum; and sperm plasma membrane. Predicted to be active in external side of plasma membrane. Biomarker of membranoproliferative glomerulonephritis and transient cerebral ischemia. Orthologous to human CCR6 (C-C motif chemokine receptor 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 80.7), Thymus (RPKM 21.0) and 1 other tissue See more
Orthologs
human mouse all
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Genomic context

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Location:
1q12
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (55022037..55055857, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (52474477..52508301, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (53063380..53087519, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene SFT2 domain containing 1 Neighboring gene mitochondrial pyruvate carrier 1 Neighboring gene uncharacterized LOC134482722 Neighboring gene centrosomal protein 43 Neighboring gene uncharacterized LOC134484997 Neighboring gene uncharacterized LOC134484998 Neighboring gene ribonuclease T2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. The role of CC chemokine receptor 6 in host defense in a model of invasive pulmonary aspergillosis. Phadke AP, et al. Am J Respir Crit Care Med, 2007 Jun 1. PMID 17379855, Free PMC Article
  2. In situ demonstration of dendritic cell migration from rat intestine to mesenteric lymph nodes: relationships to maturation and role of chemokines. Kobayashi H, et al. J Leukoc Biol, 2004 Mar. PMID 14673014
  3. IgA production requires B cell interaction with subepithelial dendritic cells in Peyer's patches. Reboldi A, et al. Science, 2016 May 13. PMID 27174992, Free PMC Article
  4. CCR6 selectively promotes monocyte mediated inflammation and atherogenesis in mice. Manthey HD, et al. Thromb Haemost, 2013 Dec. PMID 24114205
  5. Late angiotensin II receptor blockade in progressive rat mesangioproliferative glomerulonephritis: new insights into mechanisms. Villa L, et al. J Pathol, 2013 Apr. PMID 23192593

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The results suggest a potential mechanism for the recruitment of IL-17-producing cells to degenerated intervertebral discs via a CCL20/CCR6 axis in vivo.
    Title: Production of CCL20 on nucleus pulposus cells recruits IL-17-producing cells to degenerated IVD tissues in rat models.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

Clone Names

  • MGC108876

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables C-C chemokine binding IBA
Inferred from Biological aspect of Ancestor
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DN2 thymocyte differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in DN3 thymocyte differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in T cell migration ISO
Inferred from Sequence Orthology
more info
  
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 cell chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell chemotaxis ISO
Inferred from Sequence Orthology
more info
  
involved_in chemokine-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
involved_in leukocyte migration involved in inflammatory response ISO
Inferred from Sequence Orthology
more info
  
involved_in lymphocyte migration ISO
Inferred from Sequence Orthology
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 cytosolic calcium ion concentration IMP
Inferred from Mutant Phenotype
more info
 PubMed 
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 IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of epithelial cell migration 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 ISO
Inferred from Sequence Orthology
more info
  
NOT involved_in regulation of T-helper 17 cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in thymocyte migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in thymocyte migration ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
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 ISO
Inferred from Sequence Orthology
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
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
CC chemokine receptor 6
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)

  1. NM_001013145.1 → NP_001013163.1  C-C chemokine receptor type 6

    See identical proteins and their annotated locations for NP_001013163.1

    Status: PROVISIONAL

    Source sequence(s)
    BC091197
    UniProtKB/TrEMBL
    A0A8I5ZP26, A6KK39, Q5BK58
    Related
    ENSRNOP00000017302.3, ENSRNOT00000017302.7
    Conserved Domains (1) summary
    cd15172
    Location:38 → 318
    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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086019.1 Reference GRCr8

    Range
    55022037..55055857 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039110679.2 → XP_038966607.1  C-C chemokine receptor type 6 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZP26, A6KK39, Q5BK58
    Conserved Domains (1) summary
    cd15172
    Location:38 → 318
    7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

  2. XM_039110677.2 → XP_038966605.1  C-C chemokine receptor type 6 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZP26, A6KK39, Q5BK58
    Conserved Domains (1) summary
    cd15172
    Location:38 → 318
    7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

  3. XM_008758755.4 → XP_008756977.1  C-C chemokine receptor type 6 isoform X1

    See identical proteins and their annotated locations for XP_008756977.1

    UniProtKB/TrEMBL
    A0A8I5ZP26, A6KK39, Q5BK58
    Related
    ENSRNOP00000083536.1
    Conserved Domains (1) summary
    cd15172
    Location:38 → 318
    7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

  4. XM_008758756.4 → XP_008756978.1  C-C chemokine receptor type 6 isoform X1

    See identical proteins and their annotated locations for XP_008756978.1

    UniProtKB/TrEMBL
    A0A8I5ZP26, A6KK39, Q5BK58
    Conserved Domains (1) summary
    cd15172
    Location:38 → 318
    7tmA_CCR6; CC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors
Nucleotide Protein Strain
Heading Accession and Version

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