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CXCR5 C-X-C motif chemokine receptor 5 [ Homo sapiens (human) ]

Gene ID: 643, updated on 29-Nov-2020

Summary

Official Symbol
CXCR5provided by HGNC
Official Full Name
C-X-C motif chemokine receptor 5provided by HGNC
Primary source
HGNC:HGNC:1060
See related
Ensembl:ENSG00000160683 MIM:601613
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
BLR1; CD185; MDR15
Summary
This gene encodes a multi-pass membrane protein that belongs to the CXC chemokine receptor family. It is expressed in mature B-cells and Burkitt's lymphoma. This cytokine receptor binds to B-lymphocyte chemoattractant (BLC), and is involved in B-cell migration into B-cell follicles of spleen and Peyer patches. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Aug 2011]
Expression
Biased expression in lymph node (RPKM 22.1), spleen (RPKM 17.8) and 3 other tissues See more
Orthologs

Genomic context

See CXCR5 in Genome Data Viewer
Location:
11q23.3
Exon count:
2
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (118883892..118897787)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (118754475..118766980)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene DEAD-box helicase 6 Neighboring gene SET pseudogene 16 Neighboring gene BCL9 like Neighboring gene microRNA 4492 Neighboring gene RNA, 7SL, cytoplasmic 688, pseudogene

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 Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Association analyses identify three susceptibility Loci for vitiligo in the Chinese Han population.
GeneReviews: Not available
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
GeneReviews: Not available
Genetics of rheumatoid arthritis contributes to biology and drug discovery.
GeneReviews: Not available
Genome-wide association study identifies 12 new susceptibility loci for primary biliary cirrhosis.
GeneReviews: Not available
Genome-wide Association Study Identifies Five Susceptibility Loci for Follicular Lymphoma outside the HLA Region.
GeneReviews: Not available
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
GeneReviews: Not available

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 infection downregulates CXCR5 and PDCD1 (PD1) expression in primary germinal center T follicular helper cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Nef nef HIV-1 Nef induces variable levels of CXCR5 downregulation in different cell types PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC117347

Gene Ontology Provided by GOA

Function Evidence Code Pubs
C-C chemokine binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
C-C chemokine receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
C-X-C chemokine receptor activity IEA
Inferred from Electronic Annotation
more info
 
G protein-coupled receptor activity TAS
Traceable Author Statement
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
B cell activation IEA
Inferred from Electronic Annotation
more info
 
G protein-coupled receptor signaling pathway TAS
Traceable Author Statement
more info
 
calcium-mediated signaling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chemokine-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
leukocyte chemotaxis IEA
Inferred from Electronic Annotation
more info
 
lymph node development IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cytokinesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cytosolic calcium ion concentration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
C-X-C chemokine receptor type 5
Names
Burkitt lymphoma receptor 1, GTP binding protein (chemokine (C-X-C motif) receptor 5)
Burkitt lymphoma receptor 1, GTP-binding protein
CXC-R5
CXCR-5
MDR-15
chemokine (C-X-C motif) receptor 5
monocyte-derived receptor 15

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_001716.5NP_001707.1  C-X-C chemokine receptor type 5 isoform 1

    See identical proteins and their annotated locations for NP_001707.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the predominant transcript, and encodes the longer isoform (1).
    Source sequence(s)
    AK291512, AP004609, AW575330, BC110352
    Consensus CDS
    CCDS8402.1
    UniProtKB/Swiss-Prot
    P32302
    UniProtKB/TrEMBL
    A0N0R2, A8K647, Q2YD84
    Related
    ENSP00000292174.4, ENST00000292174.5
    Conserved Domains (1) summary
    pfam00001
    Location:68322
    7tm_1; 7 transmembrane receptor (rhodopsin family)
  2. NM_032966.2NP_116743.1  C-X-C chemokine receptor type 5 isoform 2

    See identical proteins and their annotated locations for NP_116743.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs at the 5' end compared to variant 1. This results in translation initiation from an in-frame downstream AUG, and an isoform (2) with a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AW575330, BC110352, CO958128, X68829
    UniProtKB/Swiss-Prot
    P32302
    UniProtKB/TrEMBL
    Q2YD84
    Conserved Domains (1) summary
    pfam00001
    Location:23277
    7tm_1; 7 transmembrane receptor (rhodopsin family)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    118883892..118897787
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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