U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    CXCR6 C-X-C motif chemokine receptor 6 [ Homo sapiens (human) ]

    Gene ID: 10663, updated on 11-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    CXCR6provided by HGNC
    Official Full Name
    C-X-C motif chemokine receptor 6provided by HGNC
    Primary source
    HGNC:HGNC:16647
    See related
    Ensembl:ENSG00000172215 MIM:605163; AllianceGenome:HGNC:16647
    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
    BONZO; CD186; CDw186; STRL33; TYMSTR
    Summary
    The protein encoded by this gene is a G protein-coupled receptor with seven transmembrane domains that belongs to the CXC chemokine receptor family. This family also includes CXCR1, CXCR2, CXCR3, CXCR4, CXCR5, and CXCR7. This gene, which maps to the chemokine receptor gene cluster, is expressed in several T lymphocyte subsets and bone marrow stromal cells. The encoded protein and its exclusive ligand, chemokine ligand 16 (CCL16), are part of a signalling pathway that regulates T lymphocyte migration to various peripheral tissues (the liver, spleen red pulp, intestine, lungs, and skin) and promotes cell-cell interaction with dendritic cells and fibroblastic reticular cells. CXCR6/CCL16 also controls the localization of resident memory T lymphocytes to different compartments of the lung and maintains airway resident memory T lymphocytes, which are an important first line of defense against respiratory pathogens. The encoded protein serves as an entry coreceptor used by HIV-1 and SIV to enter target cells, in conjunction with CD4. [provided by RefSeq, Aug 2020]
    Expression
    Broad expression in lymph node (RPKM 5.9), spleen (RPKM 4.9) and 19 other tissues See more
    Orthologs
    mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See CXCR6 in Genome Data Viewer
    Location:
    3p21.31
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (45940915..45948351)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (45956798..45964234)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (45982407..45989843)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene leucine zipper transcription factor like 1 Neighboring gene CCR9 promoter region Neighboring gene succinate dehydrogenase complex subunit D pseudogene 4 Neighboring gene C-C motif chemokine receptor 9 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:45956761-45957960 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:45979037-45980236 Neighboring gene FYVE and coiled-coil domain autophagy adaptor 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:45989039-45989208 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19787 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:46009167-46009806 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:46009807-46010446 Neighboring gene Sharpr-MPRA regulatory region 2695 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:46029541-46030041 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:46034569-46035069 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:46037115-46037614 Neighboring gene uncharacterized LOC105377063 Neighboring gene nuclear receptor binding factor 2 pseudogene 2 Neighboring gene X-C motif chemokine receptor 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Phenotypic and Functional Plasticity of CXCR6(+) Peripheral Blood NK Cells. Angelo LS, et al. Front Immunol, 2021. PMID 35173710, Free PMC Article
    2. Association of CXCR6 with COVID-19 severity: delineating the host genetic factors in transcriptomic regulation. Dai Y, et al. Hum Genet, 2021 Sep. PMID 34155559, Free PMC Article
    3. CXCR6(+) NK Cells in Human Fetal Liver and Spleen Possess Unique Phenotypic and Functional Capabilities. Angelo LS, et al. Front Immunol, 2019. PMID 30941128, Free PMC Article
    4. High expression of CXC chemokine receptor 6 associates with poor prognosis in patients with clear cell renal cell carcinoma. Chang Y, et al. Urol Oncol, 2017 Dec. PMID 28918166
    5. Polymorphisms of chemokine receptor genes and clearance of hepatitis C virus infection in Chinese population. Chen M, et al. Gene, 2017 Aug 15. PMID 28456591

    See all (109) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. rs71327024 Associated with COVID-19 Hospitalization Reduces CXCR6 Promoter Activity in Human CD4[+] T Cells via Disruption of c-Myb Binding.
      Title: rs71327024 Associated with COVID-19 Hospitalization Reduces CXCR6 Promoter Activity in Human CD4(+) T Cells via Disruption of c-Myb Binding.
    2. Association of 3p21.31 Locus (CXCR6 and LZTFL1) with COVID-19 Outcomes in Brazilian Hospitalyzed Subjects.
      Title: Association of 3p21.31 Locus (CXCR6 and LZTFL1) with COVID-19 Outcomes in Brazilian Hospitalyzed Subjects.
    3. Clonally expanded, thyrotoxic effector CD8[+] T cells driven by IL-21 contribute to checkpoint inhibitor thyroiditis.
      Title: Clonally expanded, thyrotoxic effector CD8(+) T cells driven by IL-21 contribute to checkpoint inhibitor thyroiditis.
    4. Platelet SR-PSOX/CXCL16-CXCR6 Axis Influences Thrombotic Propensity and Prognosis in Coronary Artery Disease.
      Title: Platelet SR-PSOX/CXCL16-CXCR6 Axis Influences Thrombotic Propensity and Prognosis in Coronary Artery Disease.
    5. CXCL16 Promotes Gastric Cancer Tumorigenesis via ADAM10-Dependent CXCL16/CXCR6 Axis and Activates Akt and MAPK Signaling Pathways.
      Title: CXCL16 Promotes Gastric Cancer Tumorigenesis via ADAM10-Dependent CXCL16/CXCR6 Axis and Activates Akt and MAPK Signaling Pathways.
    6. Phenotypic and Functional Plasticity of CXCR6(+) Peripheral Blood NK Cells.
      Title: Phenotypic and Functional Plasticity of CXCR6(+) Peripheral Blood NK Cells.
    7. CXCL16/CXCR6 Axis in Adipocytes Differentiated from Human Adipose Derived Mesenchymal Stem Cells Regulates Macrophage Polarization.
      Title: CXCL16/CXCR6 Axis in Adipocytes Differentiated from Human Adipose Derived Mesenchymal Stem Cells Regulates Macrophage Polarization.
    8. CXCR6 is required for antitumor efficacy of intratumoral CD8(+) T cell.
      Title: CXCR6 is required for antitumor efficacy of intratumoral CD8(+) T cell.
    9. Auto-aggressive CXCR6(+) CD8 T cells cause liver immune pathology in NASH.
      Title: Auto-aggressive CXCR6(+) CD8 T cells cause liver immune pathology in NASH.
    10. Integrative approach identifies SLC6A20 and CXCR6 as putative causal genes for the COVID-19 GWAS signal in the 3p21.31 locus.
      Title: Integrative approach identifies SLC6A20 and CXCR6 as putative causal genes for the COVID-19 GWAS signal in the 3p21.31 locus.
    Submit: New GeneRIF Correction See all GeneRIFs (85)

    Phenotypes

    Go to the top of the page Help

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

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

    Go to the top of the page Help

    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

    Go to the top of the page Help

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Macrophage-tropic HIV-1 can use CCR2b, and to a lesser extent CCR3, STRL33, and APJ, to infect cells; the V1/2 region of HIV-1 gp120 plays a more important role in governing the use of CCR2b, CCR3, STRL33, and APJ than for CXCR4 PubMed
    env Some HIV-1 isolates are able to use CCR5/Bonzo as HIV-1 gp120 coreceptors for entry into cells PubMed
    env Coexpression of DC-SIGN enables some HIV-1 isolates to use alternate HIV-1 gp120 coreceptors like STRL33 to infect cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    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 receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables C-X-C chemokine receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables G protein-coupled receptor activity TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables coreceptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in G protein-coupled receptor signaling pathway TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in calcium-mediated signaling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in chemokine-mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of cytosolic calcium ion concentration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in viral genome replication TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    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
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    C-X-C chemokine receptor type 6
    Names
    G protein-coupled receptor
    G-protein coupled receptor STRL33
    G-protein coupled receptor bonzo
    chemokine (C-X-C motif) receptor 6

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001386435.1 → NP_001373364.1  C-X-C chemokine receptor type 6

      Status: REVIEWED

      Source sequence(s)
      AC099782
      Consensus CDS
      CCDS2735.1
      UniProtKB/Swiss-Prot
      O00574, O00575, Q9HCA5
      UniProtKB/TrEMBL
      A0N0N3
      Related
      ENSP00000396886.1, ENST00000457814.1
      Conserved Domains (1) summary
      cd15173
      Location:32 → 299
      7tmA_CXCR6; CXC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

    2. NM_001386436.1 → NP_001373365.1  C-X-C chemokine receptor type 6

      Status: REVIEWED

      Source sequence(s)
      AC099782
      Consensus CDS
      CCDS2735.1
      UniProtKB/Swiss-Prot
      O00574, O00575, Q9HCA5
      UniProtKB/TrEMBL
      A0N0N3
      Conserved Domains (1) summary
      cd15173
      Location:32 → 299
      7tmA_CXCR6; CXC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

    3. NM_001386437.1 → NP_001373366.1  C-X-C chemokine receptor type 6

      Status: REVIEWED

      Source sequence(s)
      AC099782
      Consensus CDS
      CCDS2735.1
      UniProtKB/Swiss-Prot
      O00574, O00575, Q9HCA5
      UniProtKB/TrEMBL
      A0N0N3
      Related
      ENSP00000396218.1, ENST00000438735.1
      Conserved Domains (1) summary
      cd15173
      Location:32 → 299
      7tmA_CXCR6; CXC chemokine receptor type 6, member of the class A family of seven-transmembrane G protein-coupled receptors

    4. NM_006564.2 → NP_006555.1  C-X-C chemokine receptor type 6

      See identical proteins and their annotated locations for NP_006555.1

      Status: REVIEWED

      Source sequence(s)
      AC099782, Y13248
      Consensus CDS
      CCDS2735.1
      UniProtKB/Swiss-Prot
      O00574, O00575, Q9HCA5
      UniProtKB/TrEMBL
      A0N0N3
      Related
      ENSP00000304414.4, ENST00000304552.5
      Conserved Domains (1) summary
      cd15173
      Location:32 → 299
      7tmA_CXCR6; CXC 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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      45940915..45948351
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      45956798..45964234
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O00574.1 GenPept UniProtKB/Swiss-Prot:O00574

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous