CXCR6 Gene (Protein Coding)

C-X-C Motif Chemokine Receptor 6

GC03P045982
GIFtS:
41
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 a... See more...

Aliases for CXCR6 Gene

Aliases for CXCR6 Gene

  • C-X-C Motif Chemokine Receptor 6 2 3 5
  • STRL33 2 3 4
  • TYMSTR 2 3 4
  • BONZO 2 3 4
  • Chemokine (C-X-C Motif) Receptor 6 2 3
  • G-Protein Coupled Receptor STRL33 3 4
  • G-Protein Coupled Receptor Bonzo 3 4
  • C-X-C Chemokine Receptor Type 6 3 4
  • CDw186 3 4
  • CD186 2 3
  • G Protein-Coupled Receptor 3
  • CD186 Antigen 4
  • CXC-R6 4
  • CXCR-6 4
  • CXCR6 5

External Ids for CXCR6 Gene

Previous GeneCards Identifiers for CXCR6 Gene

  • GC03P045225
  • GC03P045804
  • GC03P045945
  • GC03P045959

Summaries for CXCR6 Gene

Entrez Gene Summary for CXCR6 Gene

  • 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]

GeneCards Summary for CXCR6 Gene

CXCR6 (C-X-C Motif Chemokine Receptor 6) is a Protein Coding gene. Diseases associated with CXCR6 include Type 1 Diabetes Mellitus 22 and Immune Deficiency Disease. Among its related pathways are Signaling by GPCR and Innate Lymphoid Cell Differentiation Pathways. Gene Ontology (GO) annotations related to this gene include G protein-coupled receptor activity and C-X-C chemokine receptor activity. An important paralog of this gene is CCR6.

UniProtKB/Swiss-Prot Summary for CXCR6 Gene

  • Receptor for the C-X-C chemokine CXCL16. Used as a coreceptor by SIVs and by strains of HIV-2 and m-tropic HIV-1.

Gene Wiki entry for CXCR6 Gene

Additional gene information for CXCR6 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CXCR6 Gene

Genomics for CXCR6 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for CXCR6 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH03J045941 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE dbSUPER 268.4 +6.4 6402 11.2 NFE2 MAFK MAFG BHLHE40 GATA2 NFE2L2 CTCF CEBPB CXCR6 FYCO1 CCR1 HSALNG0025653
GH03J045938 Enhancer 1.1 Ensembl ENCODE dbSUPER 269.2 -1.4 -1375 2.2 BCLAF1 ZNF654 MYC NFIC CTCF REST DEK TRIM22 SIN3A HCFC1 CXCR6 FYCO1 lnc-LZTFL1-2 LZTFL1
GH03J045983 Enhancer 1.4 FANTOM5 ENCODE CraniofacialAtlas dbSUPER 32.6 +46.1 46065 6.2 YY1 FOXA1 HOMEZ THAP11 FOXA2 SMAD4 RXRA SAP130 MIER3 RARA CXCR6 CCRL2 FYCO1 LZTFL1 CCR2 CCR5 CCR1 CCR3 HSALNG0025655 lnc-CXCR6-2
GH03J045912 Promoter/Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 28.4 -26.5 -26542 4.7 SP1 ZNF207 POLR2A BCL11A ZNF592 TRIM22 CTBP1 SMC3 IRF4 EBF1 LZTFL1 lnc-FYCO1-5 CXCR6 FYCO1 CCR9 SDHDP4 SACM1L ENSG00000201635
GH03J045991 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 17.4 +53.0 53039 5.3 BCLAF1 ZNF207 MYC IKZF1 SIX5 ZNF592 POLR2A NFIC ZIC2 YY1 FYCO1 lnc-CXCR6-2 lnc-XCR1-2 lnc-FYCO1-1 CXCR6 CCR1 CCDC12 SACM1L CCR5 CCR2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CXCR6 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CXCR6

Top Transcription factor binding sites by QIAGEN in the CXCR6 gene promoter:
  • AML1a
  • ATF-2
  • E4BP4
  • FOXI1
  • HFH-3
  • HNF-1
  • HNF-1A
  • RORalpha1

Genomic Locations for CXCR6 Gene

Latest Assembly
chr3:45,940,915-45,948,351
(GRCh38/hg38)
Size:
7,437 bases
Orientation:
Plus strand

Previous Assembly
chr3:45,982,407-45,989,843
(GRCh37/hg19 by Entrez Gene)
Size:
7,437 bases
Orientation:
Plus strand

chr3:45,982,425-45,989,845
(GRCh37/hg19 by Ensembl)
Size:
7,421 bases
Orientation:
Plus strand

Genomic View for CXCR6 Gene

Genes around CXCR6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CXCR6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CXCR6 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for CXCR6 Gene

Proteins for CXCR6 Gene

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  • Protein details for CXCR6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00574-CXCR6_HUMAN
    Recommended name:
    C-X-C chemokine receptor type 6
    Protein Accession:
    O00574
    Secondary Accessions:
    • O00575
    • Q9HCA5

    Protein attributes for CXCR6 Gene

    Size:
    342 amino acids
    Molecular mass:
    39280 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CXCR6 Gene

Post-translational modifications for CXCR6 Gene

  • Glycosylation at Asn16
  • Modification sites at PhosphoSitePlus

Other Protein References for CXCR6 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibodies for research

No data available for DME Specific Peptides for CXCR6 Gene

Domains & Families for CXCR6 Gene

Gene Families for CXCR6 Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • CD markers
  • G-protein coupled receptors
  • Predicted membrane proteins

Protein Domains for CXCR6 Gene

InterPro:
Blocks:
  • Chemokine receptor signature
  • GPCR Bonzo signature

Suggested Antigen Peptide Sequences for CXCR6 Gene

GenScript: Design optimal peptide antigens:
  • cDNA, FLJ94355, Homo sapiens chemokine (C-X-C motif) receptor 6 (CXCR6), mRNA (A0N0N3_HUMAN)
  • G-protein coupled receptor bonzo (CXCR6_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O00574

UniProtKB/Swiss-Prot:

CXCR6_HUMAN :
  • Belongs to the G-protein coupled receptor 1 family.
Family:
  • Belongs to the G-protein coupled receptor 1 family.
genes like me logo Genes that share domains with CXCR6: view

Function for CXCR6 Gene

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  6. Cell Lines for research

Molecular function for CXCR6 Gene

UniProtKB/Swiss-Prot Function:
Receptor for the C-X-C chemokine CXCL16. Used as a coreceptor by SIVs and by strains of HIV-2 and m-tropic HIV-1.

Phenotypes From GWAS Catalog for CXCR6 Gene

Gene Ontology (GO) - Molecular Function for CXCR6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004930 G protein-coupled receptor activity TAS 9166430
GO:0004950 chemokine receptor activity IEA --
GO:0015026 coreceptor activity TAS,IEA --
GO:0016493 C-C chemokine receptor activity IBA 21873635
GO:0016494 C-X-C chemokine receptor activity IEA --
genes like me logo Genes that share ontologies with CXCR6: view
genes like me logo Genes that share phenotypes with CXCR6: view

Animal Models for CXCR6 Gene

MGI Knock Outs for CXCR6:

Animal Models for research

  • Taconic Biosciences Mouse Models for CXCR6

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CXCR6

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CXCR6 Gene

Localization for CXCR6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CXCR6 Gene

Cell membrane. Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CXCR6 gene
Compartment Confidence
plasma membrane 5
extracellular 2
nucleus 2
cytosol 2
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for CXCR6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane TAS 9166430
GO:0009897 external side of plasma membrane IBA 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CXCR6: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CXCR6 Gene

Pathways & Interactions for CXCR6 Gene

genes like me logo Genes that share pathways with CXCR6: view

Pathways by source for CXCR6 Gene

1 BioSystems pathway for CXCR6 Gene
8 Qiagen pathways for CXCR6 Gene
  • Akt Signaling
  • Antioxidant Action of Vitamin-C
  • Chemokine Signaling
  • Molecular Mechanisms of Cancer
  • p38 Signaling

Gene Ontology (GO) - Biological Process for CXCR6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006935 chemotaxis IEA --
GO:0006954 inflammatory response IEA --
GO:0006955 immune response IBA 21873635
GO:0007165 signal transduction IEA --
GO:0007186 G protein-coupled receptor signaling pathway TAS --
genes like me logo Genes that share ontologies with CXCR6: view

No data available for SIGNOR curated interactions for CXCR6 Gene

Drugs & Compounds for CXCR6 Gene

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  1. Drug products for research

(6) Drugs for CXCR6 Gene - From: ApexBio, DGIdb, IUPHAR, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
CXCL16 Pharma Agonist, Full agonist 0
Plerixafor 8HCl (AMD3100 8HCl) Pharma CXCR4 antagonist 0
WZ811 Pharma Competitive CXR4 antagonist,highly potent 0
[<SUP>125</SUP>I]CXCL16 (HUMAN) Pharma 0

(2) Additional Compounds for CXCR6 Gene - From: IUPHAR and Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
[<sup>125</sup>I]CXCL16
Agonist, Full agonist

(2) ApexBio Compounds for CXCR6 Gene

Compound Action Cas Number
Plerixafor 8HCl (AMD3100 8HCl) CXCR4 antagonist 155148-31-5
WZ811 Competitive CXR4 antagonist,highly potent 55778-02-4
genes like me logo Genes that share compounds with CXCR6: view

Drug products for research

Transcripts for CXCR6 Gene

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mRNA/cDNA for CXCR6 Gene

4 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CXCR6

Alternative Splicing Database (ASD) splice patterns (SP) for CXCR6 Gene

No ASD Table

Relevant External Links for CXCR6 Gene

GeneLoc Exon Structure for
CXCR6

Expression for CXCR6 Gene

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  1. Primer products for research
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mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CXCR6 Gene

mRNA expression in normal human tissues for CXCR6 Gene
mRNA expression by GTEx for CXCR6 GenemRNA expression by BioGPS for CXCR6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CXCR6 Gene

This gene is overexpressed in Spleen (x8.9), Muscle - Skeletal (x5.6), Whole Blood (x5.3), and Small Intestine - Terminal Ileum (x4.4).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CXCR6

SOURCE GeneReport for Unigene cluster for CXCR6 Gene:

Hs.34526

mRNA Expression by UniProt/SwissProt for CXCR6 Gene:

O00574-CXCR6_HUMAN
Tissue specificity: Expressed in lymphoid tissues and activated T cells.

Evidence on tissue expression from TISSUES for CXCR6 Gene

  • Blood(4.5)
  • Pancreas(4.2)
  • Lymph node(2.8)
  • Spleen(2.7)
  • Liver(2.5)
  • Intestine(2.3)
  • Bone marrow(2)
  • Lung(2)
genes like me logo Genes that share expression patterns with CXCR6: view

Primer products for research

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for CXCR6 Gene

Orthologs for CXCR6 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CXCR6 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia CXCR6 29 30
  • 99.81 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia CXCR6 29 30
  • 84.75 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia CXCR6 29 30
  • 82.25 (n)
 OneToOne
Mouse
(Mus musculus)
 Mammalia Cxcr6 29 16 30
  • 79.18 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Cxcr6 29
  • 78.04 (n)
Oppossum
(Monodelphis domestica)
 Mammalia CXCR6 30
  • 61 (a)
 OneToOne
Platypus
(Ornithorhynchus anatinus)
 Mammalia CXCR6 30
  • 53 (a)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia CXCR6 30
  • 47 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia cxcr6 29
  • 55.63 (n)
Species where no ortholog for CXCR6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)
  • Zebrafish (Danio rerio)

Evolution for CXCR6 Gene

ENSEMBL:
Gene Tree for CXCR6 (if available)
TreeFam:
Gene Tree for CXCR6 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CXCR6: view image
Alliance of Genome Resources:
Additional Orthologs for CXCR6

Paralogs for CXCR6 Gene

Paralogs for CXCR6 Gene

(35) SIMAP similar genes for CXCR6 Gene using alignment to 2 proteins:

  • CXCR6_HUMAN
  • A0N0N3_HUMAN
genes like me logo Genes that share paralogs with CXCR6: view

Variants for CXCR6 Gene

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  1. SNP Genotyping and Copy Number Assays for research

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CXCR6 Gene

SNP ID Clinical significance and condition Chr 03 pos Variation AA Info Type
rs144312788 Likely Benign: not provided 45,946,712(+) C/T
NM_006564.2(CXCR6):c.231C>T (p.Asp77=) 		SYNONYMOUS_VARIANT,INTRON
rs34294191 Benign: not provided 45,947,183(+) C/T
NM_006564.2(CXCR6):c.702C>T (p.Phe234=) 		SYNONYMOUS_VARIANT,INTRON
rs61751654 Benign: not provided 45,947,033(+) C/T
NM_006564.2(CXCR6):c.552C>T (p.Asp184=) 		SYNONYMOUS_VARIANT,INTRON
rs2234355 -- p.Glu3Lys
VAR_003506 -- p.Asp25Ala

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for CXCR6 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for CXCR6 Gene

Variant ID Type Subtype PubMed ID
nsv476148 CNV novel sequence insertion 20440878
nsv834678 CNV gain 17160897

Variation tolerance for CXCR6 Gene

Residual Variation Intolerance Score: 16.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.59; 72.39% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CXCR6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CXCR6
Leiden Open Variation Database (LOVD)
CXCR6

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CXCR6 Gene

Disorders for CXCR6 Gene

MalaCards: The human disease database

(4) MalaCards diseases for CXCR6 Gene - From: COP and GCD

Disorder Aliases PubMed IDs
type 1 diabetes mellitus 22
  • t1d22
immune deficiency disease
  • primary immunodeficiency disease
sarcoidosis 1
  • sarcoidosis, susceptibility to, 1
respiratory failure
  • acute and chronic respiratory failure
- elite association - COSMIC cancer census association via MalaCards
Search CXCR6 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CXCR6

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with CXCR6: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CXCR6 Gene

Publications for CXCR6 Gene

  1. STRL33, A novel chemokine receptor-like protein, functions as a fusion cofactor for both macrophage-tropic and T cell line-tropic HIV-1. (PMID: 9166430) Liao F … Farber JM (The Journal of experimental medicine 1997) 2 3 4 22
  2. TYMSTR, a putative chemokine receptor selectively expressed in activated T cells, exhibits HIV-1 coreceptor function. (PMID: 9285716) Loetscher M … Moser B (Current biology : CB 1997) 3 4 22
  3. Expression cloning of new receptors used by simian and human immunodeficiency viruses. (PMID: 9230441) Deng HK … Littman DR (Nature 1997) 2 3 4
  4. Polymorphisms in innate immunity genes and patients response to dendritic cell-based HIV immuno-treatment. (PMID: 20056178) Segat L … Crovella S (Vaccine 2010) 3 40
  5. Evaluation of candidate stromal epithelial cross-talk genes identifies association between risk of serous ovarian cancer and TERT, a cancer susceptibility "hot-spot". (PMID: 20628624) Johnatty SE … Australian Cancer Study (Ovarian Cancer) (PLoS genetics 2010) 3 40

ExternalLinks

View latest publications for CXCR6 gene in Mastermind

Products for CXCR6 Gene

  • Addgene plasmids for CXCR6

Sources for CXCR6 Gene