XCR1 X-C motif chemokine receptor 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: XCR1provided by HGNC
Official Full Name: X-C motif chemokine receptor 1provided by HGNC
Primary source: HGNC:HGNC:1625
See related: Ensembl:ENSG00000173578 MIM:600552; AllianceGenome:HGNC:1625
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: GPR5; CCXCR1
Summary: The protein encoded by this gene is a chemokine receptor belonging to the G protein-coupled receptor superfamily. The family members are characterized by the presence of 7 transmembrane domains. The encoded protein transduces a signal by increasing the intracellular calcium ion level. The viral macrophage inflammatory protein-II is an antagonist of this receptor and blocks signaling. Some studies have implicated a cluster of genes at 3p21.31, including this gene, as associated with COVID-19 risk. The encoded protein may also play a role in cell proliferation and migration in several types of cancer. [provided by RefSeq, Jan 2023]
Annotation information: Note: This gene has been reviewed for its involvement in coronavirus biology, and is locus in the vicinity of disease-associated variant(s).
Expression: Biased expression in lymph node (RPKM 2.0), spleen (RPKM 1.4) and 12 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 3p21.31

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	3	NC_000003.12 (46017007..46085844, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	3	NC_060927.1 (46032885..46101714, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	3	NC_000003.11 (46058499..46127336, complement)

Chromosome 3 - NC_000003.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Systematic Pan-Cancer Analysis Reveals X-C Motif Chemokine Receptor 1 as a Prognostic and Immunological Biomarker.
Title: Systematic Pan-Cancer Analysis Reveals X-C Motif Chemokine Receptor 1 as a Prognostic and Immunological Biomarker.
Overexpression of chemokine receptor lymphotactin receptor 1 has prognostic value in clear cell renal cell carcinoma.
Title: Overexpression of chemokine receptor lymphotactin receptor 1 has prognostic value in clear cell renal cell carcinoma.
Structure-function guided modeling of chemokine-GPCR specificity for the chemokine XCL1 and its receptor XCR1.
Title: Structure-function guided modeling of chemokine-GPCR specificity for the chemokine XCL1 and its receptor XCR1.
XCL1-XCR1 chemokine pathway promotes trophoblast invasion by increasing matrix metalloproteinase activity in human first-trimester placenta
Title: XCL1-XCR1 pathway promotes trophoblast invasion at maternal-fetal interface by inducing MMP-2/MMP-9 activity.
Our study provides the basis for further investigation of the molecular mechanism by which down-regulation of XCR1 promotes the development and progression of HCC.
Title: Transcriptomic analyses of chemokines reveal that down-regulation of XCR1 is associated with advanced hepatocellular carcinoma.
Demonstrate equivalence between human and mouse XCR1(+) dendritic cells and human and mouse Langerhans cells.
Title: Comparative genomics analysis of mononuclear phagocyte subsets confirms homology between lymphoid tissue-resident and dermal XCR1(+) DCs in mouse and human and distinguishes them from Langerhans cells.
results indicate that XCR1 is a new potential therapeutic target for the treatment of lung cancer bone metastasis
Title: XCR1 promotes cell growth and migration and is correlated with bone metastasis in non-small cell lung cancer.
Induction of potent CD8 T cell cytotoxicity by specific targeting of antigen to cross-presenting dendritic cells in vivo via murine or human XCR1.
Title: Induction of potent CD8 T cell cytotoxicity by specific targeting of antigen to cross-presenting dendritic cells in vivo via murine or human XCR1.
XCR1 is expressed early during the course of tumorigenic transformation and contributes towards increased cell migration and proliferation, which can facilitate the prometastatic behavior of epithelial ovarian cancer cells.
Title: The lymphotactin receptor is expressed in epithelial ovarian carcinoma and contributes to cell migration and proliferation.
CD8alpha-positive dendritic cells (DCs) and CD103-positive DCs belong to a common DC subset which is unequivocally identified by XCR1 transgene expression despite their different anatomical locations.
Title: Cutting edge: expression of XCR1 defines mouse lymphoid-tissue resident and migratory dendritic cells of the CD8α+ type.

Submit: New GeneRIF Correction See all GeneRIFs (18)

Phenotypes

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

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D3S2919E (e-PCR)
- UniSTS:150903

NoName (e-PCR)
- UniSTS:480894

SHGC-76898 (e-PCR)
- UniSTS:7562

PMC135988P13 (e-PCR)
- UniSTS:270785

D3S3411 (e-PCR)
- UniSTS:74218

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables C-C chemokine binding	IBA Inferred from Biological aspect of Ancestor more info
enables C-C chemokine receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables chemokine receptor activity	TAS Traceable Author Statement more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in G protein-coupled receptor signaling pathway	TAS Traceable Author Statement more info	PubMed
involved_in G protein-coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger	TAS Traceable Author Statement more info	PubMed
involved_in calcium-mediated signaling	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
involved_in chemokine-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in chemotaxis	TAS Traceable Author Statement more info	PubMed
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in inflammatory response	TAS Traceable Author Statement more info	PubMed
involved_in positive regulation of cytosolic calcium ion concentration	IBA Inferred from Biological aspect of Ancestor more info
involved_in release of sequestered calcium ion into cytosol	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: chemokine XC receptor 1

Names: G protein-coupled receptor 5; XC chemokine receptor 1; chemokine (C motif) XC receptor 1; chemokine (C motif) receptor 1; lymphotactin receptor

NCBI Reference Sequences (RefSeq)

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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_001024644.2 → NP_001019815.1 chemokine XC receptor 1

See identical proteins and their annotated locations for NP_001019815.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 3. All three variants encode the same protein.

Source sequence(s)

AB189435, AC099782, BC069075, BC095533

Consensus CDS

CCDS2736.1

UniProtKB/Swiss-Prot

P46094

UniProtKB/TrEMBL

B2RAP0, Q502V0

Related

ENSP00000310405.3, ENST00000309285.4

Conserved Domains (1) summary

cd15182
Location:32 → 298

7tmA_XCR1; XC chemokine receptor 1, member of the class A family of seven-transmembrane G protein-coupled receptors
NM_001381860.1 → NP_001368789.1 chemokine XC receptor 1

Status: REVIEWED

Description

Transcript Variant: This variant (3) represents the longest transcript. All three variants encode the same protein.

Source sequence(s)

AC099782, AC104439, AC133140

Consensus CDS

CCDS2736.1

UniProtKB/Swiss-Prot

P46094

UniProtKB/TrEMBL

B2RAP0, Q502V0

Related

ENSP00000507745.1, ENST00000683768.1

Conserved Domains (1) summary

cd15182
Location:32 → 298

7tmA_XCR1; XC chemokine receptor 1, member of the class A family of seven-transmembrane G protein-coupled receptors
NM_005283.3 → NP_005274.1 chemokine XC receptor 1

See identical proteins and their annotated locations for NP_005274.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) differs in the 5' UTR compared to variant 3. All three variants encode the same protein.

Source sequence(s)

AB189434, AC099782, BC069075, BC095533

Consensus CDS

CCDS2736.1

UniProtKB/Swiss-Prot

P46094

UniProtKB/TrEMBL

B2RAP0, Q502V0

Related

ENSP00000379277.3, ENST00000395946.3

Conserved Domains (1) summary

cd15182
Location:32 → 298

7tmA_XCR1; XC chemokine receptor 1, member of the class A family of seven-transmembrane G protein-coupled receptors