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XCR1 Gene

protein-coding   GIFtS: 57

GC03M046037
chemokine (C motif) receptor 1
(Previous name: chemokine (C motif) XC receptor 1 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbols: GPR5, CCXCR1)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
CCXCR1 2, 3, 5
GPR5 2, 3, 5
Descriptions
G protein-coupled receptor 5 2
G-protein coupled receptor 5 3
Lymphotactin receptor 2, 3
XC chemokine receptor 1 2, 3
chemokine (C motif) XC receptor 1 1, 2
chemokine (C motif) receptor 1 2
External Ids
HGNC: 16251
Entrez Gene: 28292
UniProtKB: P460943
Ensembl: ENSG000001735787
Search outside databases for aliases for XCR1 gene

Previous GC identifers: GC03M045303 GC03M045881 GC03M046023

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for XCR1:
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 and numerous conserved amino acids. This receptor is most closely related to RBS11 and the
MIP1-alpha/RANTES receptor. It transduces a signal by increasing the intracellular calcium ions
level. The viral macrophage inflammatory protein-II is an antagonist of this receptor and blocks
signaling. Two alternatively spliced transcript variants encoding the same protein have been found
for this gene. [provided by RefSeq]

UniProtKB/Swiss-Prot: XCR1_HUMAN, P46094
Function: Receptor for chemokines SCYC1 and SCYC2. Subsequently transduces a signal by increasing
the intracellular calcium ions level

Gene Wiki entry for XCR1

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the XCR1 gene  

Entrez Gene cytogenetic band: 3p21.3-p21.1|3p21.3   Ensembl cytogenetic band:  3p21.31   HGNC cytogenetic band: 3p21.3-p21.1

XCR1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M046037:     (about GC identifiers)

Start:
46,037,295 bp from pter
End:
46,043,983 bp from pter
Size:
6,689 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000003.10  NT_022517.17  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: XCR1_HUMAN, P46094 (See protein sequence)
Recommended Name: Chemokine XC receptor 1  
Size: 333 amino acids; 38508 Da
Subcellular location: Cell membrane; Multi-pass membrane protein

REFSEQ proteins (2 alternative transcripts): 
NP_001019815.1  NP_005274.1  


ENSEMBL proteins: 
ENSP00000379277 ENSP00000310405 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Millipore Purified and/or Recombinant XCR1 Protein
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (CCXCR1)
Browse Abnova for Human Recombinant Proteins
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005886 plasma membrane IEA--
GO:0005887 integral to plasma membrane TAS9632725
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Antibodies for XCR1: 
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Sigma-Aldrich Antibodies for XCR1
R&D Systems Antibodies for XCR1
Antibodies from Abcam (CCXCR1), each with their AbpromiseSM
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Novus Biologicals Antibody for XCR1

Assays for XCR1: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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3 InterPro domains/families:
 IPR017452 GPCR_Rhodpsn_supfam
 IPR005393 XCR1_lymph_rcpt
 IPR000276 7TM_GPCR_Rhodpsn


   GeneDecks  XCR1 for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P46094

ProtoNet protein and cluster: P46094

1 Blocks protein family: IPB005393 Lymphotactin receptor signature

UniProtKB/Swiss-Prot: XCR1_HUMAN, P46094
Similarity: Belongs to the G-protein coupled receptor 1 family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (XCR1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (XCR1)
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_005283

              Applied Biosystems Silencer® siRNAs for XCR1

              Sigma-Aldrich siRNA and siRNA Panels for XCR1  
                     Sigma-Aldrich shRNA Panels and shRNA for XCR1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for XCR1
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001024644
                                 Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001024644
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_001024644 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_005283

UniProtKB/Swiss-Prot: XCR1_HUMAN, P46094
Function: Receptor for chemokines SCYC1 and SCYC2. Subsequently transduces a signal by increasing
the intracellular calcium ions level

1 MGI mutant phenotype (inferred from 2 alleles(MGI details for Xcr1):

normal

3 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0004872 receptor activity IEA--
GO:0004930 G-protein coupled receptor activity IEA--
GO:0004950 chemokine receptor activity TAS10679309
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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1 Millipore Pathway for XCR1
 Neuropeptides signaling through G-protein alpha-i & G-protein alpha-q

   GeneDecks  XCR1 for the pathways selected above  
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1 Kegg Pathway  (Kegg details for XCR1):
 hsa04060 Cytokine-cytokine receptor interaction

   GeneDecks  XCR1 for the pathways selected above  
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4 Interacting proteins for XCR1 (ENSP000003104053) via UniProtKB, MINT, and/or STRING
InteractantInteraction Details
GeneCardExternal ID(s)
XCL1ENSP000003567923STRING (score=.998)
XCL2ENSP000003567933STRING (score=.994)
CCL8ENSP000002258403STRING (score=.779)
CCL13ENSP000002258443STRING (score=.717)
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5/7 Gene Ontology (GO) biological process terms (links to tree view) (see all 7 ):

GO IDQualified GO termEvidencePubMed IDs
GO:0006935 chemotaxis TAS9632725
GO:0006954 inflammatory response TAS9632725
GO:0007165 signal transduction IEA--
GO:0007187 G-protein signaling, coupled to cyclic nucleotide second messenger TAS9632725
GO:0007204 elevation of cytosolic calcium ion concentration TAS9632725
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Compounds for XCR1 available from Tocris Bioscience
1 Novoseek chemical compound relationship for XCR1 gene
Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
calcium 14.78 2 17302442 (1), 17403668 (1)
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(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (XCR1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (XCR1)
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_005283

              Sigma-Aldrich siRNA and siRNA Panels for XCR1  
                     Sigma-Aldrich shRNA Panels and shRNA for XCR1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_001024644  NM_005283  

REFSEQ mRNAs for XCR1 gene (2 alternative transcripts): 

NM_001024644.1   NM_005283.2   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_001024644  NM_005283  

               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001024644
                                 Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001024644
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_001024644 

Additional cDNA sequence: 

AB189434.1 AB189435.1 AK314277.1 BC069075.1 BC069589.1 BC095533.1 

2 DOTS entries:

DT.120846457  DT.102819653 

6 AceView cDNA sequences:

BC069589 BC069075 AB189434 NM_005283 AB189435 CF147783 

highest scoring ESTs for XCR1:

AB189434 AB189435 BC069075 BC069589 CF147783 NM_005283 BC095533 DA847074 NM_001024644 CO959248 

Unigene Cluster for XCR1:

Chemokine (C motif) receptor 1
Hs.248116  [show with all ESTs]
Unigene Representative Sequence: NM_005283


GeneLoc Exon Structure

2 Ensembl transcripts including schematic representations:
ENST00000395946  ENST00000309285  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

XCR1 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for XCR1

1 / 2 / 3

2 probe-sets matching XCR1 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

221468_at2, 3 U133-A 1 1.00 1.00 -- -- NM_005283 0.60 1.00 0.82 1

221468_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
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Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: GAGAAGCGGG

SOURCE GeneReport for Unigene cluster: Hs.248116
(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for XCR1 gene from 5/7 species (see all 7 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
XCR11   -- chemokine (C motif) receptor 1 83.43(n)
78.48(a)
484792  XM_541908.2  XP_541908.2 
chimpanzee
(Pan troglodytes)
XCR11   -- chemokine (C motif) receptor 1 99.5(n)
99.7(a)
460321  XM_001148795.1  XP_001148795.1 
cow
(Bos taurus)
XCR11   -- chemokine (C motif) receptor 1 84.18(n)
78.38(a)
617880  XM_870210.1  XP_875303.1 
rat
(Rattus norvegicus)
Xcr11   -- chemokine (C motif) receptor 1 77.6(n)
70.94(a)
301086  XM_236740.3  XP_236740.2 
mouse
(Mus musculus)
Xcr11, 5 9 (71.50 cM)5
chemokine (C motif) receptor 11, 5 76.31(n)1
72.33(a)1
238321  NM_011798.31  NP_035928.11 
 AB0284595  AK0408785  (see all 8)
About this table        Species with no ortholog for XCR1

ENSEMBL Gene Tree for XCR1
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for XCR1 gene
CX3CR12  CCR82  CCBP22  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/54 NCBI SNPs in XCR1 are shown (see all 54 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 25)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 3 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs130743821,2
A,C,F,H46036844(+) ACTTGA/GATCCA 2 -- ng514Minor allele frequency- G:0.23EU EA WA 406
rs23711,2
A,C,F46044223(+) ACTCCG/ATGAAT 2 -- ng315Minor allele frequency- A:0.10NS 94
--
rs130901941,2
A,C46044577(+) ctcagA/Cctttt 2 -- ng310--------
--
rs13922901,2
A,C46044214(+) GAAACA/GCCTAC 2 -- ng310--------
--
rs96814151,2
C46045668(+) tacaaG/Tgggga 2 -- ng310--------
rs130975561,2
F46037001(+) GTGAAT/CAAACC 2 -- ng514Minor allele frequency- C:0.16NA EA 362
--
rs8766681,2
A46038757(-) gtggcA/Gtgatc 2 -- ut51 int10--------
--
rs28885111,2
C46045743(+) tgcccA/Cgtctg 2 -- ng310--------
--
rs96820151,2
C46045667(+) atacaA/Ttgggg 2 -- ng310--------
rs22303221,2
C,F,H46038333(-) GTCCTA/GTACTG 2 L/L syn1 ese36Minor allele frequency- G:0.22MN EU EA WA NA 510
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HapMap Linkage Disequilibrium images for XCR1 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 600552

Human Genome Epidemiology Navigator: XCR1 (1 document)

(Possibly Related Articles in Doctor's Guide)
About This Section

  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
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10/16 PubMed articles for XCR1 gene (see all 16 ):
(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
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Entrez Gene: 2829 HGNC: 1625 AceView: XCR1 Ensembl:ENSG00000173578 euGenes: HUgn2829
ECgene: XCR1 H-InvDB: XCR1
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

  --
(Available from WIS Yeda, Salk, Tufts)
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  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for XCR1:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



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 Predesigned and custom siRNAs for XCR1 Antibodies for XCR1
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for XCR1 Browse small molecules at Sigma-Aldrich
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 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Antibodies for XCR1

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