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CXCL13 C-X-C motif chemokine ligand 13 [ Homo sapiens (human) ]

Gene ID: 10563, updated on 8-Dec-2018

Summary

Official Symbol
CXCL13provided by HGNC
Official Full Name
C-X-C motif chemokine ligand 13provided by HGNC
Primary source
HGNC:HGNC:10639
See related
Ensembl:ENSG00000156234 MIM:605149
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
BLC; BCA1; ANGIE; BCA-1; BLR1L; ANGIE2; SCYB13
Summary
B lymphocyte chemoattractant, independently cloned and named Angie, is an antimicrobial peptide and CXC chemokine strongly expressed in the follicles of the spleen, lymph nodes, and Peyer's patches. It preferentially promotes the migration of B lymphocytes (compared to T cells and macrophages), apparently by stimulating calcium influx into, and chemotaxis of, cells expressing Burkitt's lymphoma receptor 1 (BLR-1). It may therefore function in the homing of B lymphocytes to follicles. [provided by RefSeq, Oct 2014]
Expression
Biased expression in lymph node (RPKM 245.2), spleen (RPKM 177.4) and 3 other tissues See more
Orthologs

Genomic context

See CXCL13 in Genome Data Viewer
Location:
4q21.1
Exon count:
5
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 4 NC_000004.12 (77511753..77611834)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (78432907..78532988)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene developmental pluripotency associated 2 pseudogene Neighboring gene uncharacterized LOC105377295 Neighboring gene uncharacterized LOC105377296 Neighboring gene uncharacterized LOC105377297 Neighboring gene CCR4-NOT transcription complex subunit 6 like

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Association of genome-wide variation with highly sensitive cardiac troponin-T levels in European Americans and Blacks: a meta-analysis from atherosclerosis risk in communities and cardiovascular health studies.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 upregulates the expression of chemokine (C-X-C motif) ligand 13 (CXCL13) in peptide-treated PBMCs PubMed
Vpr vpr HIV-1 Vpr upregulates the gene expression of CXCL13 in human monocyte-derived dendritic cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Allograft Rejection, organism-specific biosystem (from WikiPathways)
    Allograft Rejection, organism-specific biosystemThis pathway illustrates molecular interactions involved in the fundamental adaptive immune response for allograft destruction. This pathway was adapted in large part from the KEGG pathway http://www...
  • CXCR3-mediated signaling events, organism-specific biosystem (from Pathway Interaction Database)
    CXCR3-mediated signaling events, organism-specific biosystem
    CXCR3-mediated signaling events
  • Chemokine receptors bind chemokines, organism-specific biosystem (from REACTOME)
    Chemokine receptors bind chemokines, organism-specific biosystemChemokine receptors are cytokine receptors found on the surface of certain cells, which interact with a type of cytokine called a chemokine. Following interaction, these receptors trigger a flux of i...
  • Chemokine signaling pathway, organism-specific biosystem (from KEGG)
    Chemokine signaling pathway, organism-specific biosystemInflammatory immune response requires the recruitment of leukocytes to the site of inflammation upon foreign insult. Chemokines are small chemoattractant peptides that provide directional cues for th...
  • Chemokine signaling pathway, conserved biosystem (from KEGG)
    Chemokine signaling pathway, conserved biosystemInflammatory immune response requires the recruitment of leukocytes to the site of inflammation upon foreign insult. Chemokines are small chemoattractant peptides that provide directional cues for th...
  • Class A/1 (Rhodopsin-like receptors), organism-specific biosystem (from REACTOME)
    Class A/1 (Rhodopsin-like receptors), organism-specific biosystemRhodopsin-like receptors (class A/1) are the largest group of GPCRs and are the best studied group from a functional and structural point of view. They show great diversity at the sequence level and ...
  • Cytokine-cytokine receptor interaction, organism-specific biosystem (from KEGG)
    Cytokine-cytokine receptor interaction, organism-specific biosystemCytokines are soluble extracellular proteins or glycoproteins that are crucial intercellular regulators and mobilizers of cells engaged in innate as well as adaptive inflammatory host defenses, cell ...
  • Cytokine-cytokine receptor interaction, conserved biosystem (from KEGG)
    Cytokine-cytokine receptor interaction, conserved biosystemCytokines are soluble extracellular proteins or glycoproteins that are crucial intercellular regulators and mobilizers of cells engaged in innate as well as adaptive inflammatory host defenses, cell ...
  • G alpha (i) signalling events, organism-specific biosystem (from REACTOME)
    G alpha (i) signalling events, organism-specific biosystemThe classical signalling mechanism for G alpha (i) is inhibition of the cAMP dependent pathway through inhibition of adenylate cyclase. Decreased production of cAMP from ATP results in decreased act...
  • GPCR downstream signaling, organism-specific biosystem (from REACTOME)
    GPCR downstream signaling, organism-specific biosystemG protein-coupled receptors (GPCRs) are classically defined as the receptor, G-protein and downstream effectors, the alpha subunit of the G-protein being the primary signaling molecule. However, it h...
  • GPCR ligand binding, organism-specific biosystem (from REACTOME)
    GPCR ligand binding, organism-specific biosystemThere are more than 800 G-protein coupled receptor (GPCRs) in the human genome, making it the largest receptor superfamily. GPCRs are also the largest class of drug targets, involved in virtually all...
  • Peptide ligand-binding receptors, organism-specific biosystem (from REACTOME)
    Peptide ligand-binding receptors, organism-specific biosystemThese receptors, a subset of the Class A/1 (Rhodopsin-like) family, all bind peptide ligands which include the chemokines, opioids and somatostatins.
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by GPCR, organism-specific biosystem (from REACTOME)
    Signaling by GPCR, organism-specific biosystemG protein-coupled receptors (GPCRs; 7TM receptors; seven transmembrane domain receptors; heptahelical receptors; G protein-linked receptors [GPLR]) are the largest family of transmembrane receptors i...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
CCR10 chemokine receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
CXCR3 chemokine receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
CXCR5 chemokine receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
chemokine activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chemokine activity IDA
Inferred from Direct Assay
more info
PubMed 
fibroblast growth factor binding IDA
Inferred from Direct Assay
more info
PubMed 
heparin binding IDA
Inferred from Direct Assay
more info
PubMed 
protein heterodimerization activity IDA
Inferred from Direct Assay
more info
PubMed 
receptor ligand activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
B cell chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
B cell chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
G protein-coupled receptor signaling pathway TAS
Traceable Author Statement
more info
 
activation of GTPase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
antimicrobial humoral immune response mediated by antimicrobial peptide IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell surface receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
cell-cell signaling IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to lipopolysaccharide IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chemokine-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chronic inflammatory response NAS
Non-traceable Author Statement
more info
PubMed 
defense response to bacterium IDA
Inferred from Direct Assay
more info
PubMed 
endothelial cell chemotaxis to fibroblast growth factor IDA
Inferred from Direct Assay
more info
PubMed 
germinal center formation NAS
Non-traceable Author Statement
more info
PubMed 
immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
immune response IC
Inferred by Curator
more info
PubMed 
inflammatory response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
leukocyte chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
lymphocyte chemotaxis across high endothelial venule ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of endothelial cell chemotaxis to fibroblast growth factor IDA
Inferred from Direct Assay
more info
PubMed 
neutrophil chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of T cell chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell-cell adhesion mediated by integrin ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of cytosolic calcium ion concentration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of integrin activation ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of angiogenesis NAS
Non-traceable Author Statement
more info
PubMed 
regulation of humoral immune response NAS
Non-traceable Author Statement
more info
PubMed 
regulation of signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell IEA
Inferred from Electronic Annotation
more info
 
extracellular region IDA
Inferred from Direct Assay
more info
PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
C-X-C motif chemokine 13
Names
B-cell chemoattractant
B-cell-attracting chemokine 1
B-cell-homing chemokine (ligand for Burkitt's lymphoma receptor-1)
B-lymphocyte chemoattractant
CXC chemokine BLC
b cell-attracting chemokine 1
b lymphocyte chemoattractant
chemokine (C-X-C motif) ligand 13 (B-cell chemoattractant)
small inducible cytokine B subfamily (Cys-X-Cys motif), member 13 (B-cell chemoattractant)
small-inducible cytokine B13

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_006419.2NP_006410.1  C-X-C motif chemokine 13 precursor

    See identical proteins and their annotated locations for NP_006410.1

    Status: REVIEWED

    Source sequence(s)
    AF044197, BI836728, CA418514
    Consensus CDS
    CCDS3582.1
    UniProtKB/Swiss-Prot
    O43927
    UniProtKB/TrEMBL
    Q53X90
    Related
    ENSP00000286758.4, ENST00000286758.4
    Conserved Domains (1) summary
    cd00273
    Location:3093
    Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p12 Primary Assembly

    Range
    77511753..77611834
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006714063.4XP_006714126.1  C-X-C motif chemokine 13 isoform X1

    See identical proteins and their annotated locations for XP_006714126.1

    UniProtKB/Swiss-Prot
    O43927
    UniProtKB/TrEMBL
    Q53X90
    Conserved Domains (1) summary
    cd00273
    Location:3093
    Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...
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