Aliases for CXCL16 Gene

Aliases for CXCL16 Gene

  • C-X-C Motif Chemokine Ligand 16 2 3 5
  • SR-PSOX 2 3 4
  • SRPSOX 2 3 4
  • Scavenger Receptor For Phosphatidylserine And Oxidized Low Density Lipoprotein 3 4
  • Chemokine (C-X-C Motif) Ligand 16 2 3
  • Transmembrane Chemokine CXCL16 3 4
  • Small-Inducible Cytokine B16 3 4
  • C-X-C Motif Chemokine 16 3 4
  • CXC Chemokine Ligand 16 2 3
  • CXCLG16 2 3
  • CXCL16 5
  • SCYB16 4

External Ids for CXCL16 Gene

Previous GeneCards Identifiers for CXCL16 Gene

  • GC17M005063
  • GC17M004982
  • GC17M004587
  • GC17M004843
  • GC17M004583
  • GC17M004637
  • GC17M004527

Summaries for CXCL16 Gene

GeneCards Summary for CXCL16 Gene

CXCL16 (C-X-C Motif Chemokine Ligand 16) is a Protein Coding gene. Diseases associated with CXCL16 include Xanthogranulomatous Cholecystitis and Systemic Lupus Erythematosus. Among its related pathways are Signaling by GPCR and PEDF Induced Signaling. Gene Ontology (GO) annotations related to this gene include chemokine activity and low-density lipoprotein particle receptor activity.

UniProtKB/Swiss-Prot Summary for CXCL16 Gene

  • 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.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CXCL16 Gene

Genomics for CXCL16 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CXCL16 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CXCL16 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CXCL16

Top Transcription factor binding sites by QIAGEN in the CXCL16 gene promoter:
  • ER-alpha
  • MRF-2
  • NF-kappaB1
  • Pax-2
  • PPAR-gamma1
  • PPAR-gamma2

Genomic Locations for CXCL16 Gene

Latest Assembly
chr17:4,733,533-4,739,928
(GRCh38/hg38)
Size:
6,396 bases
Orientation:
Minus strand

Previous Assembly
chr17:4,636,828-4,643,223
(GRCh37/hg19 by Entrez Gene)
Size:
6,396 bases
Orientation:
Minus strand

chr17:4,636,821-4,643,217
(GRCh37/hg19 by Ensembl)
Size:
6,397 bases
Orientation:
Minus strand

Genomic View for CXCL16 Gene

Genes around CXCL16 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CXCL16 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CXCL16 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CXCL16 Gene

Proteins for CXCL16 Gene

  • Protein details for CXCL16 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H2A7-CXL16_HUMAN
    Recommended name:
    C-X-C motif chemokine 16
    Protein Accession:
    Q9H2A7
    Secondary Accessions:
    • A0N0N4
    • A8K7U9
    • B2RCB0
    • Q8TC80
    • Q96K63
    • Q9BXD6
    • Q9H2F6

    Protein attributes for CXCL16 Gene

    Size:
    254 amino acids
    Molecular mass:
    27579 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAG34365.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAH17588.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAH44930.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=ABK41925.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB55078.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAF84803.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAG37507.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for CXCL16 Gene

Post-translational modifications for CXCL16 Gene

Other Protein References for CXCL16 Gene

No data available for DME Specific Peptides for CXCL16 Gene

Domains & Families for CXCL16 Gene

Gene Families for CXCL16 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins
  • Predicted secreted proteins
  • Transporters

Protein Domains for CXCL16 Gene

InterPro:

Suggested Antigen Peptide Sequences for CXCL16 Gene

GenScript: Design optimal peptide antigens:
  • Transmembrane chemokine CXCL16 (CXL16_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9H2A7

UniProtKB/Swiss-Prot:

CXL16_HUMAN :
  • Belongs to the intercrine alpha (chemokine CxC) family.
Family:
  • Belongs to the intercrine alpha (chemokine CxC) family.
genes like me logo Genes that share domains with CXCL16: view

Function for CXCL16 Gene

Molecular function for CXCL16 Gene

UniProtKB/Swiss-Prot 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.

Phenotypes From GWAS Catalog for CXCL16 Gene

Gene Ontology (GO) - Molecular Function for CXCL16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005041 low-density lipoprotein particle receptor activity IEA,ISS --
GO:0005044 scavenger receptor activity IEA,TAS 11060282
GO:0005125 cytokine activity IEA --
GO:0008009 chemokine activity IEA,ISS --
genes like me logo Genes that share ontologies with CXCL16: view
genes like me logo Genes that share phenotypes with CXCL16: view

Animal Models for CXCL16 Gene

MGI Knock Outs for CXCL16:

Animal Models for research

  • Taconic Biosciences Mouse Models for CXCL16

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CXCL16

Clone products for research

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CXCL16 Gene

Localization for CXCL16 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CXCL16 Gene

Cell membrane. Single-pass type I membrane protein. Secreted. Note=Also exists as a soluble form.

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 CXCL16 gene
Compartment Confidence
extracellular 5
plasma membrane 4
cytoskeleton 2
nucleus 2
cytosol 2
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CXCL16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space IEA,IDA 18373975
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA,TAS 11060282
GO:0016021 integral component of membrane IEA,NAS 11290797
genes like me logo Genes that share ontologies with CXCL16: view

Pathways & Interactions for CXCL16 Gene

PathCards logo

SuperPathways for CXCL16 Gene

SuperPathway Contained pathways
1 PEDF Induced Signaling
.94
.94
.73
.71
.62
.61
.47
.46
2 Peptide ligand-binding receptors
3 ERK Signaling
.61
.61
.51
4 Signaling by GPCR
5 CCR5 Pathway in Macrophages
.33
genes like me logo Genes that share pathways with CXCL16: view

Pathways by source for CXCL16 Gene

17 Qiagen pathways for CXCL16 Gene
  • Akt Signaling
  • all-trans-Retinoic Acid Signaling in Brain
  • Antioxidant Action of Vitamin-C
  • Chemokine Signaling
  • Endothelin-1 Signaling Pathway

Gene Ontology (GO) - Biological Process for CXCL16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006898 receptor-mediated endocytosis IEA,NAS 11060282
GO:0006935 chemotaxis IEA,NAS 11290797
GO:0007165 signal transduction IEA --
GO:0007186 G protein-coupled receptor signaling pathway TAS --
GO:0010818 T cell chemotaxis IBA 21873635
genes like me logo Genes that share ontologies with CXCL16: view

No data available for SIGNOR curated interactions for CXCL16 Gene

Drugs & Compounds for CXCL16 Gene

(2) Drugs for CXCL16 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Calcium Nutra 6959

(125) Additional Compounds for CXCL16 Gene - From: HMDB and Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
PS(14:0/14:0)
  • 1-Myristoyl-2-myristoyl-sn-glycero-3-phosphoserine
  • Phosphatidylserine(14:0/14:0)
  • Phosphatidylserine(28:0)
  • PS(28:0)
  • pSer(14:0/14:0)
PS(14:0/14:1(9Z))
  • 1-Myristoyl-2-myristoleoyl-sn-glycero-3-phosphoserine
  • Phosphatidylserine(14:0/14:1)
  • Phosphatidylserine(14:0/14:1n5)
  • Phosphatidylserine(14:0/14:1W5)
  • Phosphatidylserine(28:1)
PS(14:0/16:0)
  • 1-Myristoyl-2-palmitoyl-sn-glycero-3-phosphoserine
  • Phosphatidylserine(14:0/16:0)
  • Phosphatidylserine(30:0)
  • PS(30:0)
  • pSer(14:0/16:0)
PS(14:0/16:1(9Z))
  • 1-Myristoyl-2-palmitoleoyl-sn-glycero-3-phosphoserine
  • Phosphatidylserine(14:0/16:1)
  • Phosphatidylserine(14:0/16:1n7)
  • Phosphatidylserine(14:0/16:1W7)
  • Phosphatidylserine(30:1)
PS(14:0/18:0)
  • 1-Myristoyl-2-stearoyl-sn-glycero-3-phosphoserine
  • Phosphatidylserine(14:0/18:0)
  • Phosphatidylserine(32:0)
  • PS(32:0)
  • pSer(14:0/18:0)
genes like me logo Genes that share compounds with CXCL16: view

Transcripts for CXCL16 Gene

mRNA/cDNA for CXCL16 Gene

3 REFSEQ mRNAs :
14 NCBI additional mRNA sequence :
5 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 CXCL16

Clone products for research

Alternative Splicing Database (ASD) splice patterns (SP) for CXCL16 Gene

No ASD Table

Relevant External Links for CXCL16 Gene

GeneLoc Exon Structure for
CXCL16

Expression for CXCL16 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CXCL16 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CXCL16 Gene

This gene is overexpressed in Whole Blood (x8.6) and Testis (x7.4).

Protein differential expression in normal tissues from HIPED for CXCL16 Gene

This gene is overexpressed in Bone (54.6) and Islet of Langerhans (13.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CXCL16 Gene



Protein tissue co-expression partners for CXCL16 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CXCL16

SOURCE GeneReport for Unigene cluster for CXCL16 Gene:

Hs.745037

mRNA Expression by UniProt/SwissProt for CXCL16 Gene:

Q9H2A7-CXL16_HUMAN
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.

Evidence on tissue expression from TISSUES for CXCL16 Gene

  • Spleen(4.6)
  • Lung(4.6)
  • Nervous system(4)
  • Lymph node(2.8)
  • Intestine(2.8)
  • Bone marrow(2.7)
  • Liver(2.7)
  • Heart(2.5)
  • Blood(2.5)
  • Kidney(2.4)
  • Skin(2.3)
  • Stomach(2.2)
  • Muscle(2.1)
  • Gall bladder(2)
genes like me logo Genes that share expression patterns with CXCL16: view

Primer products for research

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for CXCL16 Gene

Orthologs for CXCL16 Gene

This gene was present in the common ancestor of mammals.

Orthologs for CXCL16 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CXCL16 29 30
  • 98.78 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia CXCL16 29 30
  • 73.65 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Cxcl16 29 16 30
  • 68.33 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Cxcl16 29
  • 68.19 (n)
Cow
(Bos Taurus)
Mammalia CXCL16 29 30
  • 66.67 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia CXCL16 30
  • 26 (a)
OneToOne
Species where no ortholog for CXCL16 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)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Oppossum (Monodelphis domestica)
  • 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)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)
  • Zebrafish (Danio rerio)

Evolution for CXCL16 Gene

ENSEMBL:
Gene Tree for CXCL16 (if available)
TreeFam:
Gene Tree for CXCL16 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CXCL16: view image
Alliance of Genome Resources:
Additional Orthologs for CXCL16

Paralogs for CXCL16 Gene

No data available for Paralogs for CXCL16 Gene

Variants for CXCL16 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CXCL16 Gene

SNP ID Clinical significance and condition Chr 17 pos Variation AA Info Type
rs61463072 Benign: not provided 4,735,235(-) G/A
NM_001100812.1(CXCL16):c.632C>T (p.Pro211Leu)
MISSENSE
rs75334328 Benign: not provided 4,739,388(-) C/T
NM_001100812.1(CXCL16):c.9G>A (p.Gly3=)
SYNONYMOUS
rs2277680 -- p.Ala181Val
VAR_015424 -- p.Ile123Thr

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for CXCL16 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 CXCL16 Gene

Variant ID Type Subtype PubMed ID
dgv525e199 CNV deletion 23128226
esv3168235 CNV deletion 24192839
esv3554041 CNV deletion 23714750
nsv1952 CNV insertion 18451855
nsv574273 CNV gain 21841781
nsv833346 CNV loss 17160897

Variation tolerance for CXCL16 Gene

Residual Variation Intolerance Score: 80.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.64; 72.71% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CXCL16 Gene

Human Gene Mutation Database (HGMD)
CXCL16
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CXCL16
Leiden Open Variation Database (LOVD)
CXCL16

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CXCL16 Gene

Disorders for CXCL16 Gene

MalaCards: The human disease database

(2) MalaCards diseases for CXCL16 Gene - From: COP and GCD

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for CXCL16

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 CXCL16: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CXCL16 Gene

Publications for CXCL16 Gene

  1. A transmembrane CXC chemokine is a ligand for HIV-coreceptor Bonzo. (PMID: 11017100) Matloubian M … Cyster JG (Nature immunology 2000) 2 3 4 22
  2. Molecular cloning of a novel scavenger receptor for oxidized low density lipoprotein, SR-PSOX, on macrophages. (PMID: 11060282) Shimaoka T … Yonehara S (The Journal of biological chemistry 2000) 2 3 4
  3. Interleukin-9 polymorphism in infants with respiratory syncytial virus infection: an opposite effect in boys and girls. (PMID: 20503287) Schuurhof A … Janssen R (Pediatric pulmonology 2010) 3 40
  4. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 40
  5. Chemokine CXC Ligand 16 serum concentration but not A181V genotype is associated with atherosclerotic stroke. (PMID: 20621591) Wang KD … Kang XX (Clinica chimica acta; international journal of clinical chemistry 2010) 3 40

Products for CXCL16 Gene

Sources for CXCL16 Gene