Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CXCL16 (C-X-C motif chemokine ligand 16)

Identity

Alias_nameschemokine (C-X-C motif) ligand 16
Alias_symbol (synonym)SR-PSOX
CXCLG16
SRPSOX
Other alias
HGNC (Hugo) CXCL16
LocusID (NCBI) 58191
Atlas_Id 50303
Location 17p13.2  [Link to chromosome band 17p13]
Location_base_pair Starts at 4734509 and ends at 4739928 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
CXCL16 (17p13.2) / TEKT1 (17p13.1)FAM129A (1q25.3) / CXCL16 (17p13.2)OSTM1 (6q21) / CXCL16 (17p13.2)
CXCL16 17p13.2 / TEKT1 17p13.1

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)CXCL16   16642
Cards
Entrez_Gene (NCBI)CXCL16  58191  C-X-C motif chemokine ligand 16
AliasesCXCLG16; SR-PSOX; SRPSOX
GeneCards (Weizmann)CXCL16
Ensembl hg19 (Hinxton)ENSG00000161921 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000161921 [Gene_View]  chr17:4734509-4739928 [Contig_View]  CXCL16 [Vega]
ICGC DataPortalENSG00000161921
TCGA cBioPortalCXCL16
AceView (NCBI)CXCL16
Genatlas (Paris)CXCL16
WikiGenes58191
SOURCE (Princeton)CXCL16
Genetics Home Reference (NIH)CXCL16
Genomic and cartography
GoldenPath hg38 (UCSC)CXCL16  -     chr17:4734509-4739928 -  17p13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CXCL16  -     17p13.2   [Description]    (hg19-Feb_2009)
EnsemblCXCL16 - 17p13.2 [CytoView hg19]  CXCL16 - 17p13.2 [CytoView hg38]
Mapping of homologs : NCBICXCL16 [Mapview hg19]  CXCL16 [Mapview hg38]
OMIM605398   
Gene and transcription
Genbank (Entrez)AF275260 AF301016 AF337812 AK027389 AK292114
RefSeq transcript (Entrez)NM_001100812 NM_022059
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CXCL16
Cluster EST : UnigeneHs.745037 [ NCBI ]
CGAP (NCI)Hs.745037
Alternative Splicing GalleryENSG00000161921
Gene ExpressionCXCL16 [ NCBI-GEO ]   CXCL16 [ EBI - ARRAY_EXPRESS ]   CXCL16 [ SEEK ]   CXCL16 [ MEM ]
Gene Expression Viewer (FireBrowse)CXCL16 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)58191
GTEX Portal (Tissue expression)CXCL16
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H2A7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H2A7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H2A7
Splice isoforms : SwissVarQ9H2A7
PhosPhoSitePlusQ9H2A7
Domains : Interpro (EBI)CXCL16   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)CXCL16
DMDM Disease mutations58191
Blocks (Seattle)CXCL16
SuperfamilyQ9H2A7
Human Protein AtlasENSG00000161921
Peptide AtlasQ9H2A7
HPRD16103
IPIIPI00004946   
Protein Interaction databases
DIP (DOE-UCLA)Q9H2A7
IntAct (EBI)Q9H2A7
FunCoupENSG00000161921
BioGRIDCXCL16
STRING (EMBL)CXCL16
ZODIACCXCL16
Ontologies - Pathways
QuickGOQ9H2A7
Ontology : AmiGOlow-density lipoprotein receptor activity  low-density lipoprotein receptor activity  scavenger receptor activity  extracellular region  extracellular space  plasma membrane  receptor-mediated endocytosis  chemotaxis  chemokine activity  chemokine activity  T cell chemotaxis  membrane  integral component of membrane  positive regulation of cell growth  positive regulation of cell migration  response to cytokine  response to interferon-gamma  response to tumor necrosis factor  cellular response to lipopolysaccharide  
Ontology : EGO-EBIlow-density lipoprotein receptor activity  low-density lipoprotein receptor activity  scavenger receptor activity  extracellular region  extracellular space  plasma membrane  receptor-mediated endocytosis  chemotaxis  chemokine activity  chemokine activity  T cell chemotaxis  membrane  integral component of membrane  positive regulation of cell growth  positive regulation of cell migration  response to cytokine  response to interferon-gamma  response to tumor necrosis factor  cellular response to lipopolysaccharide  
Pathways : KEGGCytokine-cytokine receptor interaction    Chemokine signaling pathway   
NDEx NetworkCXCL16
Atlas of Cancer Signalling NetworkCXCL16
Wikipedia pathwaysCXCL16
Orthology - Evolution
OrthoDB58191
GeneTree (enSembl)ENSG00000161921
Phylogenetic Trees/Animal Genes : TreeFamCXCL16
HOVERGENQ9H2A7
HOGENOMQ9H2A7
Homologs : HomoloGeneCXCL16
Homology/Alignments : Family Browser (UCSC)CXCL16
Gene fusions - Rearrangements
Fusion : MitelmanCXCL16/TEKT1 [17p13.2/17p13.1]  
Fusion: TCGACXCL16 17p13.2 TEKT1 17p13.1 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCXCL16 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CXCL16
dbVarCXCL16
ClinVarCXCL16
1000_GenomesCXCL16 
Exome Variant ServerCXCL16
ExAC (Exome Aggregation Consortium)CXCL16 (select the gene name)
Genetic variants : HAPMAP58191
Genomic Variants (DGV)CXCL16 [DGVbeta]
DECIPHERCXCL16 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCXCL16 
Mutations
ICGC Data PortalCXCL16 
TCGA Data PortalCXCL16 
Broad Tumor PortalCXCL16
OASIS PortalCXCL16 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCXCL16  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCXCL16
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CXCL16
DgiDB (Drug Gene Interaction Database)CXCL16
DoCM (Curated mutations)CXCL16 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CXCL16 (select a term)
intoGenCXCL16
Cancer3DCXCL16(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605398   
Orphanet
MedgenCXCL16
Genetic Testing Registry CXCL16
NextProtQ9H2A7 [Medical]
TSGene58191
GENETestsCXCL16
Target ValidationCXCL16
Huge Navigator CXCL16 [HugePedia]
snp3D : Map Gene to Disease58191
BioCentury BCIQCXCL16
ClinGenCXCL16
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD58191
Chemical/Pharm GKB GenePA27057
Clinical trialCXCL16
Miscellaneous
canSAR (ICR)CXCL16 (select the gene name)
Probes
Litterature
PubMed135 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCXCL16
EVEXCXCL16
GoPubMedCXCL16
iHOPCXCL16
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 25 19:04:23 CEST 2017

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