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

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

Summary

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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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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

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

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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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

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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

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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)

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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_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

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