Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CXCL13 (C-X-C motif chemokine ligand 13)

Identity

Alias_namesSCYB13
small inducible cytokine B subfamily (Cys-X-Cys motif), member 13 (B-cell chemoattractant)
chemokine (C-X-C motif) ligand 13
Alias_symbol (synonym)BLC
BCA-1
BLR1L
ANGIE
ANGIE2
Other aliasBCA1
HGNC (Hugo) CXCL13
LocusID (NCBI) 10563
Atlas_Id 40220
Location 4q21.1  [Link to chromosome band 4q21]
Location_base_pair Starts at 77511753 and ends at 77611836 bp from pter ( according to hg38-Dec_2013)

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)CXCL13   10639
Cards
Entrez_Gene (NCBI)CXCL13  10563  C-X-C motif chemokine ligand 13
AliasesANGIE; ANGIE2; BCA-1; BCA1; 
BLC; BLR1L; SCYB13
GeneCards (Weizmann)CXCL13
Ensembl hg19 (Hinxton)ENSG00000156234 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000156234 [Gene_View]  chr4:77511753-77611836 [Contig_View]  CXCL13 [Vega]
ICGC DataPortalENSG00000156234
TCGA cBioPortalCXCL13
AceView (NCBI)CXCL13
Genatlas (Paris)CXCL13
WikiGenes10563
SOURCE (Princeton)CXCL13
Genetics Home Reference (NIH)CXCL13
Genomic and cartography
GoldenPath hg38 (UCSC)CXCL13  -     chr4:77511753-77611836 +  4q21.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CXCL13  -     4q21.1   [Description]    (hg19-Feb_2009)
EnsemblCXCL13 - 4q21.1 [CytoView hg19]  CXCL13 - 4q21.1 [CytoView hg38]
Mapping of homologs : NCBICXCL13 [Mapview hg19]  CXCL13 [Mapview hg38]
OMIM605149   
Gene and transcription
Genbank (Entrez)AF029894 AF044197 AJ002211 BC012589 BI836728
RefSeq transcript (Entrez)NM_006419
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CXCL13
Cluster EST : UnigeneHs.100431 [ NCBI ]
CGAP (NCI)Hs.100431
Alternative Splicing GalleryENSG00000156234
Gene ExpressionCXCL13 [ NCBI-GEO ]   CXCL13 [ EBI - ARRAY_EXPRESS ]   CXCL13 [ SEEK ]   CXCL13 [ MEM ]
Gene Expression Viewer (FireBrowse)CXCL13 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10563
GTEX Portal (Tissue expression)CXCL13
Protein : pattern, domain, 3D structure
UniProt/SwissProtO43927   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO43927  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO43927
Splice isoforms : SwissVarO43927
PhosPhoSitePlusO43927
Domaine pattern : Prosite (Expaxy)SMALL_CYTOKINES_CXC (PS00471)   
Domains : Interpro (EBI)Chemokine_CXC    Chemokine_CXC_CS    Chemokine_IL8-like_dom    CXC_Chemokine_domain   
Domain families : Pfam (Sanger)IL8 (PF00048)   
Domain families : Pfam (NCBI)pfam00048   
Domain families : Smart (EMBL)SCY (SM00199)  
Conserved Domain (NCBI)CXCL13
DMDM Disease mutations10563
Blocks (Seattle)CXCL13
PDB (SRS)4ZAI    5CBA    5CBE   
PDB (PDBSum)4ZAI    5CBA    5CBE   
PDB (IMB)4ZAI    5CBA    5CBE   
PDB (RSDB)4ZAI    5CBA    5CBE   
Structural Biology KnowledgeBase4ZAI    5CBA    5CBE   
SCOP (Structural Classification of Proteins)4ZAI    5CBA    5CBE   
CATH (Classification of proteins structures)4ZAI    5CBA    5CBE   
SuperfamilyO43927
Human Protein AtlasENSG00000156234
Peptide AtlasO43927
HPRD05513
IPIIPI00015163   
Protein Interaction databases
DIP (DOE-UCLA)O43927
IntAct (EBI)O43927
FunCoupENSG00000156234
BioGRIDCXCL13
STRING (EMBL)CXCL13
ZODIACCXCL13
Ontologies - Pathways
QuickGOO43927
Ontology : AmiGOgerminal center formation  lymphocyte chemotaxis across high endothelial venule  chronic inflammatory response  regulation of humoral immune response  extracellular region  extracellular region  extracellular space  cell  inflammatory response  immune response  immune response  cell surface receptor signaling pathway  G-protein coupled receptor signaling pathway  positive regulation of cytosolic calcium ion concentration  cell-cell signaling  chemokine activity  heparin binding  positive regulation of T cell chemotaxis  fibroblast growth factor binding  CXCR5 chemokine receptor binding  CCR10 chemokine receptor binding  response to lipopolysaccharide  positive regulation of integrin activation  positive regulation of cell-cell adhesion mediated by integrin  B cell chemotaxis  endothelial cell chemotaxis to fibroblast growth factor  B cell chemotaxis across high endothelial venule  regulation of cell proliferation  defense response to bacterium  regulation of angiogenesis  protein heterodimerization activity  receptor agonist activity  CXCR3 chemokine receptor binding  lymph node development  chemokine-mediated signaling pathway  activation of GTPase activity  negative regulation of endothelial cell chemotaxis to fibroblast growth factor  
Ontology : EGO-EBIgerminal center formation  lymphocyte chemotaxis across high endothelial venule  chronic inflammatory response  regulation of humoral immune response  extracellular region  extracellular region  extracellular space  cell  inflammatory response  immune response  immune response  cell surface receptor signaling pathway  G-protein coupled receptor signaling pathway  positive regulation of cytosolic calcium ion concentration  cell-cell signaling  chemokine activity  heparin binding  positive regulation of T cell chemotaxis  fibroblast growth factor binding  CXCR5 chemokine receptor binding  CCR10 chemokine receptor binding  response to lipopolysaccharide  positive regulation of integrin activation  positive regulation of cell-cell adhesion mediated by integrin  B cell chemotaxis  endothelial cell chemotaxis to fibroblast growth factor  B cell chemotaxis across high endothelial venule  regulation of cell proliferation  defense response to bacterium  regulation of angiogenesis  protein heterodimerization activity  receptor agonist activity  CXCR3 chemokine receptor binding  lymph node development  chemokine-mediated signaling pathway  activation of GTPase activity  negative regulation of endothelial cell chemotaxis to fibroblast growth factor  
Pathways : KEGGCytokine-cytokine receptor interaction    Chemokine signaling pathway   
NDEx NetworkCXCL13
Atlas of Cancer Signalling NetworkCXCL13
Wikipedia pathwaysCXCL13
Orthology - Evolution
OrthoDB10563
GeneTree (enSembl)ENSG00000156234
Phylogenetic Trees/Animal Genes : TreeFamCXCL13
HOVERGENO43927
HOGENOMO43927
Homologs : HomoloGeneCXCL13
Homology/Alignments : Family Browser (UCSC)CXCL13
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCXCL13 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CXCL13
dbVarCXCL13
ClinVarCXCL13
1000_GenomesCXCL13 
Exome Variant ServerCXCL13
ExAC (Exome Aggregation Consortium)CXCL13 (select the gene name)
Genetic variants : HAPMAP10563
Genomic Variants (DGV)CXCL13 [DGVbeta]
DECIPHERCXCL13 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCXCL13 
Mutations
ICGC Data PortalCXCL13 
TCGA Data PortalCXCL13 
Broad Tumor PortalCXCL13
OASIS PortalCXCL13 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCXCL13  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCXCL13
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 CXCL13
DgiDB (Drug Gene Interaction Database)CXCL13
DoCM (Curated mutations)CXCL13 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CXCL13 (select a term)
intoGenCXCL13
Cancer3DCXCL13(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605149   
Orphanet
MedgenCXCL13
Genetic Testing Registry CXCL13
NextProtO43927 [Medical]
TSGene10563
GENETestsCXCL13
Target ValidationCXCL13
Huge Navigator CXCL13 [HugePedia]
snp3D : Map Gene to Disease10563
BioCentury BCIQCXCL13
ClinGenCXCL13
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10563
Chemical/Pharm GKB GenePA35570
Clinical trialCXCL13
Miscellaneous
canSAR (ICR)CXCL13 (select the gene name)
Probes
Litterature
PubMed145 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCXCL13
EVEXCXCL13
GoPubMedCXCL13
iHOPCXCL13
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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

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