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CXCL16 Gene

protein-coding   GIFtS: 56
GCID: GC17M004637

Chemokine (C-X-C Motif) Ligand 16

Microbiology & Infectious Diseases Congress
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Chemokine (C-X-C Motif) Ligand 161 2     SR-PSOX2 3
CXC Chemokine Ligand 161 2     SRPSOX2 3
Scavenger Receptor For Phosphatidylserine And Oxidized Low Density
Lipoprotein2 3
     CXCLG162
Small-Inducible Cytokine B162 3     C-X-C Motif Chemokine 162
Transmembrane Chemokine CXCL162 3     SCYB163

External Ids:    HGNC: 166421   Entrez Gene: 581912   Ensembl: ENSG000001619217   OMIM: 6053985   UniProtKB: Q9H2A73   

Export aliases for CXCL16 gene to outside databases

Previous GC identifers: GC17M005063 GC17M004982 GC17M004587 GC17M004843 GC17M004583 GC17M004527


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for CXCL16 Gene:
CXCL16 (chemokine (C-X-C motif) ligand 16) is a protein-coding gene. Diseases associated with CXCL16 include xanthogranulomatous cholecystitis, and cholecystitis. GO annotations related to this gene include chemokine activity and receptor binding.

UniProtKB/Swiss-Prot: CXL16_HUMAN, Q9H2A7
Function: Acts as a scavenger receptor on macrophages, which specifically binds to OxLDL (oxidized low density
lipoprotein), suggesting that it may be involved in pathophysiology such as atherogenesis (By similarity).
Induces a strong chemotactic response. Induces calcium mobilization. Binds to CXCR6/Bonzo




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Regulatory transcription factor binding sites in the CXCL16 gene promoter:
         ER-alpha   PPAR-gamma1   Pax-2   PPAR-gamma2   MRF-2   NF-kappaB1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCXCL16 promoter sequence
   Search Chromatin IP Primers for CXCL16

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CXCL16


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 17p13   Ensembl cytogenetic band:  17p13.2   HGNC cytogenetic band: 17p13

CXCL16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CXCL16 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M004637:  view genomic region     (about GC identifiers)

Start:
4,636,821 bp from pter      End:
4,643,223 bp from pter
Size:
6,403 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: CXL16_HUMAN, Q9H2A7 (See protein sequence)
Recommended Name: C-X-C motif chemokine 16 precursor  
Size: 254 amino acids; 27579 Da
Sequence caution: Sequence=AAG34365.1; Type=Erroneous initiation; Sequence=AAH17588.1; Type=Erroneous initiation;
Sequence=AAH44930.1; Type=Erroneous initiation; Sequence=ABK41925.1; Type=Erroneous initiation;
Sequence=BAB55078.1; Type=Erroneous initiation; Sequence=BAF84803.1; Type=Erroneous initiation;
Sequence=BAG37507.1; Type=Erroneous initiation;
Secondary accessions: A0N0N4 A8K7U9 B2RCB0 Q8TC80 Q96K63 Q9BXD6 Q9H2F6

Explore the universe of human proteins at neXtProt for CXCL16: NX_Q9H2A7

Explore proteomics data for CXCL16 at MOPED

Post-translational modifications: 

  • Glycosylated1
  • Glycosylation2 at Asn168

  • See CXCL16 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001094282.1  NP_071342.2  

    ENSEMBL proteins: 
     ENSP00000293778   ENSP00000459592   ENSP00000460145  
    Reactome Protein details: Q9H2A7

    CXCL16 Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
    R&D Systems Recombinant & Natural Proteins for CXCL16
    Browse recombinant and purified proteins available from Enzo Life Sciences
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    OriGene Protein Over-expression Lysate for CXCL16
    OriGene Custom MassSpec
    OriGene Custom Protein Services for CXCL16
    GenScript Purified and Recombinant Proteins for CXCL16
    Novus Biologicals CXCL16 Proteins
    Novus Biologicals CXCL16 Lysates
    Sino Biological Recombinant Protein for CXCL16
    Sino Biological Cell Lysate for CXCL16
    ProSpec Recombinant Protein for CXCL16
    Cloud-Clone Corp. Proteins for CXCL16

    CXCL16 Antibody Products:

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    R&D Systems Antibodies for CXCL16
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    Abcam antibodies for CXCL16
    Cloud-Clone Corp. Antibodies for CXCL16
    ThermoFisher Antibody for CXCL16
    LSBio Antibodies in human, mouse, rat for CXCL16

    CXCL16 Assay Products:

    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for CXCL16
    R&D Systems ELISAs for CXCL16         (see all)
    GenScript Custom Assay Services for CXCL16
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for CXCL16
    Cloud-Clone Corp. CLIAs for CXCL16


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    ENDOLIG: Endogenous ligands

    1 InterPro protein domain:
     IPR026296 CXCL16

    Graphical View of Domain Structure for InterPro Entry Q9H2A7

    ProtoNet protein and cluster: Q9H2A7

    UniProtKB/Swiss-Prot: CXL16_HUMAN, Q9H2A7
    Similarity: Belongs to the intercrine alpha (chemokine CxC) family


    CXCL16 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CXL16_HUMAN, Q9H2A7
    Function: Acts as a scavenger receptor on macrophages, which specifically binds to OxLDL (oxidized low density
    lipoprotein), suggesting that it may be involved in pathophysiology such as atherogenesis (By similarity).
    Induces a strong chemotactic response. Induces calcium mobilization. Binds to CXCR6/Bonzo

         Gene Ontology (GO): 4 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005041low-density lipoprotein receptor activity ISS--
    GO:0005044scavenger receptor activity TAS11060282
    GO:0005102receptor binding NAS11017100
    GO:0008009chemokine activity ISS--
         
    CXCL16 for ontologies           About GeneDecksing


    Phenotypes:
         5 GenomeRNAi human phenotypes for CXCL16:
     Decreased TP53 protein express  Decreased viability of wild-ty  G0/1 arrest  Increased G1 DNA content 
     Synthetic lethal with Ras 

         8 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Cxcl16):
     cardiovascular system  cellular  endocrine/exocrine gland  hematopoietic system  homeostasis/metabolism 
     immune system  reproductive system  tumorigenesis 

    CXCL16 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for CXCL16: Cxcl16tm1Syon Cxcl16/Zmynd15Cxcl16/tm1Ifc Cxcl16tm1Lex

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CXCL16
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for CXCL16

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for CXCL16
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for CXCL16

    miRNA
    Products:
        
    miRTarBase miRNAs that target CXCL16:
    hsa-mir-92a-3p (MIRT049831), hsa-mir-744-5p (MIRT037621), hsa-mir-335-5p (MIRT019098)

    Block miRNA regulation of human, mouse, rat CXCL16 using miScript Target Protectors
    2 qRT-PCR Assays for microRNAs that regulate CXCL16:
    hsa-miR-1244 hsa-miR-3153
    SwitchGear 3'UTR luciferase reporter plasmidCXCL16 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for CXCL16
    Predesigned siRNA for gene silencing in human, mouse, rat CXCL16

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for CXCL16

    Clone
    Products:
         
    OriGene clones in human, mouse for CXCL16 (see all 13)
    OriGene ORF clones in mouse, rat for CXCL16
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): CXCL16 (NM_022059)
    Sino Biological Human cDNA Clone for CXCL16
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CXCL16
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CXCL16

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for CXCL16
    Browse ESI BIO Cell Lines and PureStem Progenitors for CXCL16 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CXCL16


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    CXL16_HUMAN, Q9H2A7: Cell membrane; Single-pass type I membrane protein (Potential). Secreted. Note=Also exists
    as a soluble form
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    extracellular5
    plasma membrane5
    nucleus1

    Gene Ontology (GO): 5 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005615extracellular space IDA18373975
    GO:0005886plasma membrane IEA--
    GO:0016020membrane TAS11060282
    GO:0016021integral component of membrane NAS11017100

    CXCL16 for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for CXCL16 About   (see all 9)  
    See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1PEDF Induced Signaling
    MIF Regulation of Innate Immune Cells0.94
    IL-6 Pathway0.61
    MIF Mediated Glucocorticoid Regulation0.94
    STAT3 Pathway0.47
    PEDF Induced Signaling0.73
    Endothelin-1 Signaling Pathway0.46
    all-trans-Retinoic Acid Signaling in Brain0.71
    Cytokine-cytokine receptor interaction0.43
    2Chemokine Superfamily: Human/Mouse Ligand-Receptor Interactions
    Chemokine receptors bind chemokines0.81
    Chemokine Superfamily: Human/Mouse Ligand-Receptor Interactions0.81
    3Chemokine Signaling
    Chemokine signaling pathway0.33
    Chemokine Signaling0.33
    4Peptide ligand-binding receptors
    Class A/1 (Rhodopsin-like receptors)0.71
    Peptide ligand-binding receptors0.60
    GPCR ligand binding0.71
    G alpha (i) signalling events0.44
    5Signaling by GPCR
    Signaling by GPCR0.90
    Signal Transduction0.58
    GPCR downstream signaling0.90

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 R&D Systems Pathway for CXCL16
        Chemokine Superfamily: Human/Mouse Ligand-Receptor Interactions

    Selected Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for CXCL16 (see all 17)
        Endothelin-1 Signaling Pathway
    Molecular Mechanisms of Cancer
    Antioxidant Action of Vitamin-C
    Transendothelial Migration of Leukocytes
    MIF Mediated Glucocorticoid Regulation


    2 Reactome Pathways for CXCL16
        Chemokine receptors bind chemokines
    G alpha (i) signalling events


    2 Kegg Pathways  (Kegg details for CXCL16):
        Cytokine-cytokine receptor interaction
    Chemokine signaling pathway


    CXCL16 for pathways           About GeneDecksing

        Pathway & Disease-focused RT2 Profiler PCR Arrays including CXCL16: 
              Polycomb & Trithorax Target Genes in human mouse rat
              Lipoprotein Signaling & Cholesterol Metabolism in human mouse rat
              Cytokines & Chemokines in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Chemokines & Receptors in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for CXCL16

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for CXCL16 (Q9H2A73 ENSP000002937784) via UniProtKB, MINT, STRING, and/or I2D (see all 152)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CXCR6O005743, ENSP000003044144I2D: score=1 STRING: ENSP00000304414
    ACKR3ENSP000002729284STRING: ENSP00000272928
    ADORA3ENSP000003587304STRING: ENSP00000358730
    APPENSP000002849814STRING: ENSP00000284981
    C3AR1ENSP000003020794STRING: ENSP00000302079
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006898receptor-mediated endocytosis NAS11060282
    GO:0006935chemotaxis NAS11290797
    GO:0030307positive regulation of cell growth IMP18373975
    GO:0030335positive regulation of cell migration IMP18373975
    GO:0034097response to cytokine IDA18373975

    CXCL16 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
    About This Section

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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for CXCL16 (CXL16)

    Selected HMDB Compounds for CXCL16 (see all 125)    About this table
    CompoundSynonyms CAS #PubMed Ids
    PS(16:0/16:0)Phosphatidylserine (16:0/16:0) (see all 14)3036-82-612486725
    CalciumCa (see all 2)7440-70-2--
    PS(14:0/14:0)Phosphatidylserine(14:0/14:0) (see all 7)----
    PS(14:0/14:1(9Z))Phosphatidylserine(14:0/14:1n5) (see all 13)----
    PS(14:0/16:0)1-myristoyl-2-palmitoyl-sn-glycero-3-phosphoserine (see all 7)----
    PS(14:0/16:1(9Z))PS(14:0/16:1n7) (see all 13)----
    PS(14:0/18:0)Phosphatidylserine(32:0) (see all 7)----
    PS(14:0/18:1(9Z))PSer(14:0/18:1n9) (see all 13)----
    PS(14:0/18:2(9Z,12Z))PS(14:0/18:2) (see all 13)----
    PS(14:0/18:3(9Z,12Z,15Z))Phosphatidylserine(14:0/18:3) (see all 14)----

    2 Novoseek inferred chemical compound relationships for CXCL16 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    hydroxamate 55.1 2 15777180 (1), 15128827 (1)
    phosphatidylserine 52.2 10 11795294 (2), 11701468 (2), 15703197 (1), 18565283 (1) (see all 5)



    CXCL16 for compounds           About GeneDecksing



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for CXCL16 gene (2 alternative transcripts): 
    NM_001100812.1  NM_022059.3  

    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000293778(uc002fyr.4) ENST00000576153 ENST00000574412(uc002fys.4)
    ENST00000575168 ENST00000573123
    Congresses - knowledge worth sharing:
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
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    Block miRNA regulation of human, mouse, rat CXCL16 using miScript Target Protectors
    2 qRT-PCR Assays for microRNAs that regulate CXCL16:
    hsa-miR-1244 hsa-miR-3153
    SwitchGear 3'UTR luciferase reporter plasmidCXCL16 3' UTR sequence
    Inhib. RNA
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    GenScript: all cDNA clones in your preferred vector (see all 2): CXCL16 (NM_022059)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CXCL16
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CXCL16
    Primer
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    OriGene qPCR primer pairs and template standards for CXCL16
    OriGene qSTAR qPCR primer pairs in human, mouse for CXCL16
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CXCL16
      QuantiTect SYBR Green Assays in human, mouse, rat CXCL16
      QuantiFast Probe-based Assays in human, mouse, rat CXCL16

    Selected AceView cDNA sequences (see all 148):

    AI580516 BI825854 CA307348 AW817294 CD671383 CR611932 BM848390 CR623711 
    AY358909 AF275260 AA577696 AF301016 BQ067319 AA121717 BX396685 BG721967 
    AK027389 BG540579 AL042594 AW610175 CD369381 AF337812 AA524738 AA366329 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    CXCL16 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CCTGGCCCTA
    CXCL16 Expression
    About this image


    CXCL16 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 9) fully expand
     
     Brain (Nervous System)    fully expand to see all 2 entries
             Endothelial Cells Blood Brain Barrier
             Meninges
     
     Kidney (Urinary System)    fully expand to see all 2 entries
             Renal Collecting Duct System
     
     Epithelial Cells
             Duct Cells Pancreatic Ducts
     
     Heart (Cardiovascular System)
             Cardiac Fibroblasts Myocardium
     
     Fibroblasts
             Cardiac Fibroblasts Myocardium
    CXCL16 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CXCL16 Protein Expression

    UniProtKB/Swiss-Prot: CXL16_HUMAN, Q9H2A7
    Tissue specificity: Expressed in T-cell areas. Expressed in spleen, lymph nodes, lung, kidney, small intestine and
    thymus. Weak expression in heart and liver and no expression in brain and bone marrow

        Pathway & Disease-focused RT2 Profiler PCR Arrays including CXCL16: 
              Polycomb & Trithorax Target Genes in human mouse rat
              Lipoprotein Signaling & Cholesterol Metabolism in human mouse rat
              Cytokines & Chemokines in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Chemokines & Receptors in human mouse rat

    Primer
    Products:
    OriGene qPCR primer pairs and template standards for CXCL16
    OriGene qSTAR qPCR primer pairs in human, mouse for CXCL16
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CXCL16
    QuantiTect SYBR Green Assays in human, mouse, rat CXCL16
    QuantiFast Probe-based Assays in human, mouse, rat CXCL16
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CXCL16

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

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    This gene was present in the common ancestor of human and mouse.

    Orthologs for CXCL16 gene from Selected species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cxcl161 , 5 chemokine (C-X-C motif) ligand 161, 5 68.33(n)1
    51.13(a)1
      11 (42.99 cM)5
    661021  NM_023158.61  NP_075647.31 
     704539835 


    ENSEMBL Gene Tree for CXCL16 (if available)
    TreeFam Gene Tree for CXCL16 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section

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      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for CXCL16 (see all 117)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1906962131,2
    --4637476(+) AGCCTA/GGATGA 2 -- ut31 int10--------
    rs761527031,2
    C--4637522(+) AAACAA/GAACAA 2 -- ut31 int12Minor allele frequency- G:0.14NA 122
    rs169541591,2
    C,F,H--4637549(+) GTCCAA/GGTTAT 2 -- ut31 int112Minor allele frequency- G:0.04NA NS WA CSA 1058
    rs112891011,2
    C--4637587(+) ATAGT-/ATAACC 2 -- ut31 int11Minor allele frequency- A:0.50CSA 2
    rs1829437511,2
    --4637616(+) TAAGAC/GAGGGC 2 -- ut31 int10--------
    rs116589711,2
    C,F,A,H--4637698(+) TCCTCG/ACACCT 2 -- ut31 int1 ese317Minor allele frequency- A:0.16NS EA NA WA CSA 2146
    rs755652211,2
    F--4637735(+) TGACTC/TAGGAG 2 -- ut31 int11Minor allele frequency- T:0.03WA 118
    rs1876161581,2
    --4637802(+) AAGTAC/TGTATA 2 -- int1 spd10--------
    rs10510091,2
    C,F,O,H--4637886(-) GGAAGC/TTTGTG 2 -- ut31 ese335Minor allele frequency- T:0.36EA MN NA NS EU 6083
    rs37447001,2
    C,F,A,H--4638010(+) GATGAG/TAGCTT 2 -- int133Minor allele frequency- T:0.28EA NA NS WA CSA 2991

    HapMap Linkage Disequilibrium report for CXCL16 (4636821 - 4643223 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for CXCL16:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv525e199CNV Deletion23128226
    nsv1952CNV Insertion18451855
    nsv833346CNV Loss17160897

    Human Gene Mutation Database (HGMD): CXCL16
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CXCL16
    DNA2.0 Custom Variant and Variant Library Synthesis for CXCL16

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 605398    OMIM disorders: --

    Selected diseases for CXCL16 (see all 32):    
    About MalaCards
    xanthogranulomatous cholecystitis    cholecystitis    common variable immunodeficiency    pancreatic ductal adenocarcinoma
    lupus nephritis    periodontal disease    nephritis    purpura
    bronchiolitis    atherosclerosis    periodontitis    gingivitis
    diabetic nephropathy    rheumatoid arthritis    coronary heart disease    crohn's disease
    coronary artery disease    gout    meningitis    psoriasis


    CXCL16 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:
    The International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD) 9 - 13 March 2014

    5 Novoseek inferred disease relationships for CXCL16 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    atherosclerosis 45.6 5 17258089 (5)
    atherosclerotic plaque 34.5 2 11795294 (1), 11701468 (1)
    necrosis 28.4 11 19435795 (2), 15880344 (1), 18272035 (1), 18344492 (1) (see all 7)
    inflammation 26.2 4 17258089 (2), 15128827 (1), 20035869 (1)
    rheumatoid arthritis 11.8 4 18628285 (2), 15880344 (1)

    Genetic Association Database (GAD): CXCL16
    Human Genome Epidemiology (HuGE) Navigator: CXCL16 (13 documents)

    Export disorders for CXCL16 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for CXCL16 gene, integrated from 10 sources (see all 115):
    (articles sorted by number of sources associating them with CXCL16)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. A transmembrane CXC chemokine is a ligand for HIV-coreceptor Bonzo. (PubMed id 11017100)1, 2, 3, 9 Matloubian M.... Cyster J.G. (Nat. Immunol. 2000)
    2. Molecular cloning of a novel scavenger receptor for oxidized low density lipoprotein, SR-PSOX, on macrophages. (PubMed id 11060282)1, 2, 3 Shimaoka T....Yonehara S. (J. Biol. Chem. 2000)
    3. Chemokine CXC Ligand 16 serum concentration but not A181V genotype is associated with atherosclerotic stroke. (PubMed id 20621591)1, 4 Wang K.D....Kang X.X. ( international journal of clinical chemistry 2010)
    4. An intron polymorphism in the CXCL16 gene is associated with increased risk of coronary artery disease in Chinese Han population: a large angiography-based study. (PubMed id 19954776)1, 4 Huang M....Yan C. (Atherosclerosis 2010)
    5. Interleukin-9 polymorphism in infants with respiratory syncytial virus infection: an opposite effect in boys and girls. (PubMed id 20503287)1, 4 Schuurhof A....Janssen R. (Pediatr. Pulmonol. 2010)
    6. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
    7. Association of genetic variants with chronic kidney disease in individuals with different lipid profiles. (PubMed id 19578796)1, 4 Yoshida T....Yamada Y. (Int. J. Mol. Med. 2009)
    8. Genetic susceptibility to respiratory syncytial virus bronchiolitis in preterm children is associated with airway remodeling genes and innate immune genes. (PubMed id 19258923)1, 4 Siezen C.L....Janssen R. (Pediatr. Infect. Dis. J. 2009)
    9. Genetic susceptibility to respiratory syncytial virus bronchiolitis is predominantly associated with innate immune genes. (PubMed id 17703412)1, 4 Janssen R....Hoebee B. (J. Infect. Dis. 2007)
    10. Severity of coronary artery stenosis is associated with a polymorphism in the CXCL16/SR-PSOX gene. (PubMed id 15836657)1, 4 Lundberg G.A....Eriksson P. (J. Intern. Med. 2005)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 58191 HGNC: 16642 AceView: CXCL16 Ensembl:ENSG00000161921 euGenes: HUgn58191
    ECgene: CXCL16 Kegg: 58191 H-InvDB: CXCL16

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for CXCL16 Pharmacogenomics, SNPs, Pathways
    Wikipedia http://en.wikipedia.org/wiki/CXCL16

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

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    Patent Information for CXCL16 gene:
    Search GeneIP for patents involving CXCL16

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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