CX3CR1 (C-X3-C motif chemokine receptor 1) - Rat Genome Database

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Gene: CX3CR1 (C-X3-C motif chemokine receptor 1) Canis lupus familiaris
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Symbol: CX3CR1
Name: C-X3-C motif chemokine receptor 1
RGD ID: 12280501
Description: ENCODES a protein that exhibits C-X3-C chemokine receptor activity (ortholog); chemokine receptor activity (ortholog); cytokine receptor activity (ortholog); INVOLVED IN autocrine signaling (ortholog); brain development (ortholog); cellular response to lipopolysaccharide (ortholog); ASSOCIATED WITH age related macular degeneration 12 (ortholog); anti-basement membrane glomerulonephritis (ortholog); arteriosclerosis (ortholog); FOUND IN cell surface (ortholog); dendritic tree (ortholog); integral component of plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CX3C chemokine receptor 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1238,937,069 - 8,954,738 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl238,938,906 - 8,952,808 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha238,974,330 - 8,988,240 (-)NCBI
ROS_Cfam_1.0239,221,526 - 9,239,150 (-)NCBI
ROS_Cfam_1.0 Ensembl239,221,526 - 9,237,271 (-)Ensembl
UMICH_Zoey_3.1239,036,770 - 9,050,661 (-)NCBI
UNSW_CanFamBas_1.0239,179,594 - 9,193,497 (-)NCBI
UU_Cfam_GSD_1.0239,172,979 - 9,186,888 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
age related macular degeneration 12  (ISO)
anti-basement membrane glomerulonephritis  (ISO)
arteriosclerosis  (ISO)
arthus reaction  (ISO)
asthma  (ISO)
atherosclerosis  (ISO)
atopic dermatitis  (ISO)
borna disease  (ISO)
Chloracne  (ISO)
Chronic Mesangial Proliferative Glomerulonephritis  (ISO)
congestive heart failure  (ISO)
conjunctivitis  (ISO)
corneal neovascularization  (ISO)
Coronary Disease  (ISO)
cystitis  (ISO)
diabetes mellitus  (ISO)
Experimental Arthritis  (ISO)
Experimental Autoimmune Encephalomyelitis  (ISO)
Experimental Autoimmune Neuritis  (ISO)
Experimental Autoimmune Uveitis  (ISO)
Experimental Diabetes Mellitus  (ISO)
glaucoma  (ISO)
glomerulonephritis  (ISO)
Graft vs Host Disease  (ISO)
Hearing Loss  (ISO)
hepatopulmonary syndrome  (ISO)
Herpes Simplex Encephalitis  (ISO)
human immunodeficiency virus infectious disease  (ISO)
Hyperalgesia  (ISO)
Inflammation  (ISO)
Intervertebral Disc Displacement  (ISO)
Intimal Hyperplasia  (ISO)
macular degeneration  (ISO)
Memory Disorders  (ISO)
Microscopic Polyangiitis  (ISO)
Myocardial Reperfusion Injury  (ISO)
Neoplasm Metastasis  (ISO)
nephrosis  (ISO)
obesity  (ISO)
optic nerve glioma  (ISO)
otitis media  (ISO)
Pain  (ISO)
Parkinsonism  (ISO)
portal hypertension  (ISO)
prion disease  (ISO)
psoriasis  (ISO)
pulmonary embolism  (ISO)
pulmonary hypertension  (ISO)
respiratory syncytial virus infectious disease  (ISO)
retinal degeneration  (ISO)
retinal vasculitis  (ISO)
retinitis  (ISO)
sciatic neuropathy  (ISO)
Sepsis  (ISO)
status epilepticus  (ISO)
systemic lupus erythematosus  (ISO)
systemic scleroderma  (ISO)
transient cerebral ischemia  (ISO)
uveitis  (ISO)
Viral Bronchiolitis  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adaptive immune response  (IEA)
antifungal innate immune response  (IEA)
autocrine signaling  (ISO)
brain development  (ISO)
calcium-mediated signaling  (IBA)
cell adhesion  (IEA)
cell chemotaxis  (IBA)
cellular response to lipopolysaccharide  (ISO)
cellular response to transforming growth factor beta stimulus  (ISO)
central nervous system maturation  (ISO)
cerebral cortex cell migration  (ISO)
chemokine-mediated signaling pathway  (IEA)
chemotaxis  (IEA)
cytokine-mediated signaling pathway  (ISO)
G protein-coupled receptor signaling pathway  (IEA)
host-mediated regulation of intestinal microbiota composition  (ISO)
immune response  (IBA)
immune system process  (IEA)
inflammatory response  (IEA)
innate immune response  (IEA)
leukocyte chemotaxis  (ISO)
leukocyte tethering or rolling  (ISO)
macrophage chemotaxis  (ISO)
memory  (ISO)
microglial cell activation  (ISO)
microglial cell activation involved in immune response  (ISO)
microglial cell migration  (ISO)
modulation of chemical synaptic transmission  (ISO)
multiple spine synapse organization, single dendrite  (ISO)
negative regulation of angiogenesis  (ISO)
negative regulation of apoptotic signaling pathway  (ISO)
negative regulation of cell migration  (ISO)
negative regulation of chronic inflammatory response to non-antigenic stimulus  (ISO)
negative regulation of extrinsic apoptotic signaling pathway in absence of ligand  (ISO)
negative regulation of hippocampal neuron apoptotic process  (ISO)
negative regulation of interleukin-1 beta production  (ISO)
negative regulation of long-term synaptic potentiation  (ISO)
negative regulation of microglial cell mediated cytotoxicity  (ISO)
phospholipase C-activating G protein-coupled receptor signaling pathway  (ISO)
positive regulation of angiogenesis  (ISO)
positive regulation of cytosolic calcium ion concentration  (IBA)
positive regulation of I-kappaB phosphorylation  (ISO)
positive regulation of microglial cell migration  (ISO)
positive regulation of monocyte chemotaxis  (ISO)
positive regulation of neuroblast proliferation  (ISO)
positive regulation of neurogenesis  (ISO)
positive regulation of NF-kappaB transcription factor activity  (ISO)
positive regulation of protein kinase B signaling  (ISO)
regulation of nitric oxide biosynthetic process  (ISO)
regulation of tumor necrosis factor production  (ISO)
response to ischemia  (ISO)
signal transduction  (IEA)
social behavior  (ISO)
synapse maturation  (ISO)
synapse pruning  (ISO)

References
Additional References at PubMed
PMID:22169328  


Genomics

Comparative Map Data
CX3CR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1238,937,069 - 8,954,738 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl238,938,906 - 8,952,808 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha238,974,330 - 8,988,240 (-)NCBI
ROS_Cfam_1.0239,221,526 - 9,239,150 (-)NCBI
ROS_Cfam_1.0 Ensembl239,221,526 - 9,237,271 (-)Ensembl
UMICH_Zoey_3.1239,036,770 - 9,050,661 (-)NCBI
UNSW_CanFamBas_1.0239,179,594 - 9,193,497 (-)NCBI
UU_Cfam_GSD_1.0239,172,979 - 9,186,888 (-)NCBI
CX3CR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38339,263,494 - 39,292,966 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl339,263,495 - 39,281,735 (-)EnsemblGRCh38hg38GRCh38
GRCh37339,304,985 - 39,323,226 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36339,279,989 - 39,296,531 (-)NCBINCBI36hg18NCBI36
Build 34339,279,990 - 39,296,526NCBI
Celera339,246,596 - 39,264,836 (-)NCBI
Cytogenetic Map3p22.2NCBI
HuRef339,347,466 - 39,365,706 (-)NCBIHuRef
CHM1_1339,256,125 - 39,274,344 (-)NCBICHM1_1
T2T-CHM13v2.0339,276,418 - 39,294,663 (-)NCBI
Cx3cr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399119,877,749 - 119,897,362 (-)NCBIGRCm39mm39
GRCm39 Ensembl9119,730,682 - 119,898,945 (-)Ensembl
GRCm389120,048,683 - 120,068,296 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9119,901,616 - 120,069,879 (-)EnsemblGRCm38mm10GRCm38
MGSCv379119,957,811 - 119,977,400 (-)NCBIGRCm37mm9NCBIm37
MGSCv369119,897,391 - 119,916,980 (-)NCBImm8
Celera9120,518,248 - 120,537,939 (-)NCBICelera
Cytogenetic Map9F4NCBI
Cx3cr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28119,785,726 - 119,799,431 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl8119,782,595 - 119,800,014 (-)Ensembl
Rnor_6.08128,740,756 - 128,754,514 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8128,740,756 - 128,754,514 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08127,941,653 - 127,955,411 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48125,033,630 - 125,047,335 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18125,053,366 - 125,067,072 (-)NCBI
Celera8118,932,179 - 118,945,873 (-)NCBICelera
Cytogenetic Map8q32NCBI
Cx3cr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542724,701,073 - 24,707,230 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542724,691,206 - 24,705,599 (+)NCBIChiLan1.0ChiLan1.0
CX3CR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1339,439,009 - 39,456,797 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl339,440,955 - 39,457,219 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0339,158,346 - 39,176,604 (-)NCBIMhudiblu_PPA_v0panPan3
Cx3cr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118195,370,137 - 195,397,149 (-)NCBI
SpeTri2.0NW_00493647328,508,726 - 28,535,640 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CX3CR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1323,944,369 - 23,957,486 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11323,944,386 - 23,957,567 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21326,204,842 - 26,218,014 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CX3CR1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.115136,757 - 153,316 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl15150,718 - 151,785 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660638,861,161 - 8,878,212 (+)NCBIVero_WHO_p1.0
Cx3cr1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247311,706,043 - 1,719,452 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247311,705,953 - 1,719,452 (+)NCBIHetGla_female_1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 3 1 6
Low 3 1 13 5 6 6 10 6
Below cutoff 2 4 6 6 6 6 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000046656   ⟹   ENSCAFP00000042683
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl238,938,906 - 8,952,808 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845028315   ⟹   ENSCAFP00845022276
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl239,221,526 - 9,237,271 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845028339   ⟹   ENSCAFP00845022294
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl239,221,535 - 9,237,248 (-)Ensembl
RefSeq Acc Id: NM_001284491   ⟹   NP_001271420
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1238,938,906 - 8,952,808 (-)NCBI
Dog10K_Boxer_Tasha238,974,330 - 8,988,240 (-)NCBI
ROS_Cfam_1.0239,223,365 - 9,237,268 (-)NCBI
UMICH_Zoey_3.1239,036,770 - 9,050,661 (-)NCBI
UNSW_CanFamBas_1.0239,179,594 - 9,193,497 (-)NCBI
UU_Cfam_GSD_1.0239,172,979 - 9,186,888 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038431608   ⟹   XP_038287536
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0239,221,526 - 9,239,150 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001271420 (Get FASTA)   NCBI Sequence Viewer  
  XP_038287536 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAL46484 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001271420   ⟸   NM_001284491
- UniProtKB: H1ADZ0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000042683   ⟸   ENSCAFT00000046656
RefSeq Acc Id: XP_038287536   ⟸   XM_038431608
- Peptide Label: isoform X1
RefSeq Acc Id: ENSCAFP00845022276   ⟸   ENSCAFT00845028315
RefSeq Acc Id: ENSCAFP00845022294   ⟸   ENSCAFT00845028339

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000031104 Ensembl
  ENSCAFG00030011268 UniProtKB/TrEMBL
  ENSCAFG00845015921 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00030018303.1 UniProtKB/TrEMBL
  ENSCAFP00030018407.1 UniProtKB/TrEMBL
  ENSCAFP00030018470.1 UniProtKB/TrEMBL
  ENSCAFP00845022276.1 UniProtKB/TrEMBL
  ENSCAFP00845022294 ENTREZGENE
  ENSCAFP00845022294.1 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00030020989.1 UniProtKB/TrEMBL
  ENSCAFT00030021111.1 UniProtKB/TrEMBL
  ENSCAFT00030021183.1 UniProtKB/TrEMBL
  ENSCAFT00845028315.1 UniProtKB/TrEMBL
  ENSCAFT00845028339 ENTREZGENE
  ENSCAFT00845028339.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.42.10 UniProtKB/TrEMBL
InterPro Chemokine_CX3CR1 UniProtKB/TrEMBL
  GPCR_Rhodpsn UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/TrEMBL
  GRASP55_65 UniProtKB/TrEMBL
  GRASP_PDZ UniProtKB/TrEMBL
  PDZ_sf UniProtKB/TrEMBL
KEGG Report cfa:485599 UniProtKB/TrEMBL
NCBI Gene CX3CR1 ENTREZGENE
PANTHER PTHR12893 UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/TrEMBL
  GRASP55_65 UniProtKB/TrEMBL
PRINTS FRACTALKINER UniProtKB/TrEMBL
  GPCRRHODOPSN UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
  PDZ_GRASP UniProtKB/TrEMBL
Superfamily-SCOP SSF50156 UniProtKB/TrEMBL
UniProt A0A8C0N310_CANLF UniProtKB/TrEMBL
  A0A8C0N327_CANLF UniProtKB/TrEMBL
  A0A8C0N6S9_CANLF UniProtKB/TrEMBL
  A0A8I3NYI6_CANLF UniProtKB/TrEMBL
  H1ADZ0 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:39746 ENTREZGENE