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

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; AllianceGenome:HGNC:10639
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: mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 4q21.1

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	4	NC_000004.12 (77511753..77611834)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	4	NC_060928.1 (80852591..80952672)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	4	NC_000004.11 (78432907..78532988)

Chromosome 4 - NC_000004.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

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 Apr 4 07:08:55 2018

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interferon subverts an AHR-JUN axis to promote CXCL13[+] T cells in lupus.
Title: Interferon subverts an AHR-JUN axis to promote CXCL13(+) T cells in lupus.
Transcriptome analysis reveals the clinical significance of CXCL13 in Pan-Gyn tumors.
Title: Transcriptome analysis reveals the clinical significance of CXCL13 in Pan-Gyn tumors.
Correlation of serum and local CXCL13 levels with disease severity in patients with non-traumatic osteonecrosis of femoral head.
Title: Correlation of serum and local CXCL13 levels with disease severity in patients with non-traumatic osteonecrosis of femoral head.
CXCL13 promotes TNF-alpha synthesis in rheumatoid arthritis through activating ERK/p38 pathway and inhibiting miR-330-3p generation.
Title: CXCL13 promotes TNF-α synthesis in rheumatoid arthritis through activating ERK/p38 pathway and inhibiting miR-330-3p generation.
CXC chemokine ligand 13 and galectin-9 plasma levels collaboratively provide prediction of disease activity and progression-free survival in chronic lymphocytic leukemia.
Title: CXC chemokine ligand 13 and galectin-9 plasma levels collaboratively provide prediction of disease activity and progression-free survival in chronic lymphocytic leukemia.
CXCL13 in Cerebrospinal Fluid: Clinical Value in a Large Cross-Sectional Study.
Title: CXCL13 in Cerebrospinal Fluid: Clinical Value in a Large Cross-Sectional Study.
The association between the serum concentration of CXC subfamily chemokine 13 and post-surgical clinical outcomes in cervical cancer patients.
Title: The association between the serum concentration of CXC subfamily chemokine 13 and post-surgical clinical outcomes in cervical cancer patients.
CT-based radiomics prediction of CXCL13 expression in ovarian cancer.
Title: CT-based radiomics prediction of CXCL13 expression in ovarian cancer.
Peripheral helper-T-cell-derived CXCL13 is a crucial pathogenic factor in idiopathic multicentric Castleman disease.
Title: Peripheral helper-T-cell-derived CXCL13 is a crucial pathogenic factor in idiopathic multicentric Castleman disease.
Cancer-associated fibroblasts drive CXCL13 production in activated T cells via TGF-beta.
Title: Cancer-associated fibroblasts drive CXCL13 production in activated T cells via TGF-beta.

Submit: New GeneRIF Correction See all GeneRIFs (223)

Phenotypes

Go to the top of the page Help

Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI 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. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

Go to the top of the page Help

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

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

D4S3265 (e-PCR)
- UniSTS:66657

SHGC-59613 (e-PCR)
- UniSTS:1226

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables CCR10 chemokine receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables CXCR chemokine receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables CXCR3 chemokine receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables CXCR5 chemokine receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables chemokine activity	IBA Inferred from Biological aspect of Ancestor more info
enables chemokine activity	IDA Inferred from Direct Assay more info	PubMed
enables fibroblast growth factor binding	IDA Inferred from Direct Assay more info	PubMed
enables fibroblast growth factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables heparin binding	IDA Inferred from Direct Assay more info	PubMed
enables receptor ligand activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in B cell chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in activation of GTPase activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide	IBA Inferred from Biological aspect of Ancestor more info
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide	IDA Inferred from Direct Assay more info	PubMed
involved_in cell surface receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in cell-cell signaling	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to lipopolysaccharide	IBA Inferred from Biological aspect of Ancestor more info
involved_in chronic inflammatory response	NAS Non-traceable Author Statement more info	PubMed
involved_in defense response to bacterium	IDA Inferred from Direct Assay more info	PubMed
involved_in endothelial cell chemotaxis to fibroblast growth factor	IDA Inferred from Direct Assay more info	PubMed
involved_in germinal center formation	NAS Non-traceable Author Statement more info	PubMed
involved_in immune response	IC Inferred by Curator more info	PubMed
involved_in inflammatory response	IBA Inferred from Biological aspect of Ancestor more info
involved_in killing of cells of another organism	IDA Inferred from Direct Assay more info	PubMed
involved_in lymphocyte chemotaxis across high endothelial venule	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of endothelial cell chemotaxis to fibroblast growth factor	IDA Inferred from Direct Assay more info	PubMed
involved_in neutrophil chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of T cell chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cell-cell adhesion mediated by integrin	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cytosolic calcium ion concentration	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of integrin activation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of angiogenesis	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of humoral immune response	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in extracellular region	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular region	TAS Traceable Author Statement more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info

General protein information

Go to the top of the page Help

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)

Go to the top of the page Help

NEW Try the new Transcript table

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)

NM_001371558.1 → NP_001358487.1 C-X-C motif chemokine 13 precursor

Status: REVIEWED

Source sequence(s)

AC093758

Consensus CDS

CCDS3582.1

UniProtKB/Swiss-Prot

O43927

UniProtKB/TrEMBL

A0A024RDB7, Q53X90

Related

ENSP00000507688.1, ENST00000682537.1

Conserved Domains (1) summary

cd00273
Location:30 → 93

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 contain an RCxC motif ...
NM_006419.3 → NP_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

A0A024RDB7, Q53X90

Related

ENSP00000286758.4, ENST00000286758.4

Conserved Domains (1) summary

cd00273
Location:30 → 93

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 contain an RCxC motif ...