Xcr1 X-C motif chemokine receptor 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Xcr1provided by RGD
Official Full Name: X-C motif chemokine receptor 1provided by RGD
Primary source: RGD:1311480
See related: Ensembl:ENSRNOG00000006620 AllianceGenome:RGD:1311480
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable C-C chemokine binding activity and C-C chemokine receptor activity. Predicted to be involved in several processes, including calcium-mediated signaling; cell chemotaxis; and positive regulation of cytosolic calcium ion concentration. Predicted to act upstream of or within chemotaxis; release of sequestered calcium ion into cytosol; and response to cytokine. Predicted to be integral component of membrane. Predicted to be active in external side of plasma membrane. Orthologous to human XCR1 (X-C motif chemokine receptor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 27.1), Thymus (RPKM 22.0) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q32

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (132357020..132393596, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (123479454..123516168, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (132911474..132919110, complement)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Rat cytomegalovirus-encoded gamma-chemokine vXCL1 is a highly adapted, species-specific agonist for rat XCR1-positive dendritic cells.
Title: Rat cytomegalovirus-encoded γ-chemokine vXCL1 is a highly adapted, species-specific agonist for rat XCR1-positive dendritic cells.
biology of vXCL1 offers an interesting opportunity to study the role of XCL1 and XCR1(+) DC in the cross-presentation of viral antigens
Title: Cytomegalovirus expresses the chemokine homologue vXCL1 capable of attracting XCR1+ CD4- dendritic cells.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

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

Process	Evidence Code	Pubs
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
acts_upstream_of_or_within chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cytosolic calcium ion concentration	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within release of sequestered calcium ion into cytosol	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to cytokine	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: chemokine XC receptor 1

Names: chemokine (C motif) receptor 1

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_001106871.1 → NP_001100341.1 chemokine XC receptor 1

See identical proteins and their annotated locations for NP_001100341.1

Status: PROVISIONAL

Source sequence(s)

CH473954

UniProtKB/TrEMBL

A0A4D6YKT9, A0A4D6YN16, A0A4D6YRC8, A0A4D6YRD9, A0A4D6YTG8, A0A4D6YWI1, A0A4D6YWI5, A6I4C8, D3ZGG9

Related

ENSRNOP00000008747.5, ENSRNOT00000008747.7

Conserved Domains (2) summary

cd14964
Location:44 → 68

7tm_GPCRs; TM helix 1 [structural motif]

cl28897
Location:42 → 304

7tm_GPCRs; seven-transmembrane G protein-coupled receptor superfamily

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086026.1 Reference GRCr8

Range

132357020..132393596 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039081319.2 → XP_038937247.1 chemokine XC receptor 1 isoform X2

UniProtKB/TrEMBL

A0A4D6YWI5

Conserved Domains (2) summary

cd14964
Location:26 → 53

7tm_GPCRs; TM helix 1 [structural motif]

cl28897
Location:26 → 288

7tm_GPCRs; seven-transmembrane G protein-coupled receptor superfamily
XM_063265313.1 → XP_063121383.1 chemokine XC receptor 1 isoform X1
XM_039081320.2 → XP_038937248.1 chemokine XC receptor 1 isoform X3

Conserved Domains (2) summary

cd14964
Location:23 → 53

7tm_GPCRs; TM helix 3 [structural motif]

cl28897
Location:1 → 216

7tm_GPCRs; seven-transmembrane G protein-coupled receptor superfamily