Cx3cl1 chemokine (C-X3-C motif) ligand 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Cx3cl1provided by MGI
Official Full Name: chemokine (C-X3-C motif) ligand 1provided by MGI
Primary source: MGI:MGI:1097153
See related: Ensembl:ENSMUSG00000031778 AllianceGenome:MGI:1097153
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: FK; CX3C; Cxc3; Scyd1; ABCD-3; D8Bwg0439e
Summary: Enables CX3C chemokine receptor binding activity and chemokine activity. Acts upstream of or within several processes, including angiogenesis involved in wound healing; leukocyte chemotaxis; and negative regulation of extrinsic apoptotic signaling pathway in absence of ligand. Located in several cellular components, including cell surface; neuron projection; and neuronal cell body. Is expressed in several structures, including brain; genitourinary system; gut; nose; and respiratory system. Human ortholog(s) of this gene implicated in Cor pulmonale and common cold. Orthologous to human CX3CL1 (C-X3-C motif chemokine ligand 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in cortex adult (RPKM 170.7), frontal lobe adult (RPKM 132.2) and 14 other tissues See more
Orthologs: human all
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Genomic context

Location:: 8 C5; 8 46.79 cM

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	8	NC_000074.7 (95498808..95509055)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	8	NC_000074.6 (94772180..94782427)

Chromosome 8 - NC_000074.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The CX3CL1 intracellular domain exhibits neuroprotection via insulin receptor/insulin-like growth factor receptor signaling.
Title: The CX3CL1 intracellular domain exhibits neuroprotection via insulin receptor/insulin-like growth factor receptor signaling.
CX3CL1/CX3CR1 interaction protects against lipotoxicity-induced nonalcoholic steatohepatitis by regulating macrophage migration and M1/M2 status.
Title: CX3CL1/CX3CR1 interaction protects against lipotoxicity-induced nonalcoholic steatohepatitis by regulating macrophage migration and M1/M2 status.
CX3CL1 inhibits NLRP3 inflammasome-induced microglial pyroptosis and improves neuronal function in mice with experimentally-induced ischemic stroke.
Title: CX3CL1 inhibits NLRP3 inflammasome-induced microglial pyroptosis and improves neuronal function in mice with experimentally-induced ischemic stroke.
Diet-Induced Obesity Promotes Liver Metastasis of Pancreatic Ductal Adenocarcinoma via CX3CL1/CX3CR1 Axis.
Title: Diet-Induced Obesity Promotes Liver Metastasis of Pancreatic Ductal Adenocarcinoma via CX3CL1/CX3CR1 Axis.
Fractalkine signaling regulates oligodendroglial cell genesis from SVZ precursor cells.
Title: Fractalkine signaling regulates oligodendroglial cell genesis from SVZ precursor cells.
Compromised fractalkine signaling delays microglial occupancy of emerging modules in the multisensory midbrain.
Title: Compromised fractalkine signaling delays microglial occupancy of emerging modules in the multisensory midbrain.
Role of Fractalkine-CX3CR1 Axis in Acute Rejection of Mouse Heart Allografts Subjected to Ischemia Reperfusion Injury.
Title: Role of Fractalkine-CX3CR1 Axis in Acute Rejection of Mouse Heart Allografts Subjected to Ischemia Reperfusion Injury.
Fractalkine-induced microglial vasoregulation occurs within the retina and is altered early in diabetic retinopathy.
Title: Fractalkine-induced microglial vasoregulation occurs within the retina and is altered early in diabetic retinopathy.
Orthopedic surgery-induced cognitive dysfunction is mediated by CX3CL1/R1 signaling.
Title: Orthopedic surgery-induced cognitive dysfunction is mediated by CX3CL1/R1 signaling.
CX3CL1-CX3CR1 Signaling Deficiency Exacerbates Obesity-induced Inflammation and Insulin Resistance in Male Mice.
Title: CX3CL1-CX3CR1 Signaling Deficiency Exacerbates Obesity-induced Inflammation and Insulin Resistance in Male Mice.

Submit: New GeneRIF Correction See all GeneRIFs (118)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (4) 1 citation
Endonuclease-mediated (4)

General gene information

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Markers

NoName (e-PCR)
- UniSTS:224536

U92565 (e-PCR)
- UniSTS:159796

AF010586 (e-PCR)
- UniSTS:179784

AI848747 (e-PCR)
- UniSTS:179785

Cx3cl1 (e-PCR), detects polymorphism
- UniSTS:470614

Scyd1 (e-PCR), detects polymorphism
- UniSTS:142712

PMC86945P1 (e-PCR)
- UniSTS:273566

PMC127832P1 (e-PCR)
- UniSTS:270561

RH125207 (e-PCR)
- UniSTS:162029

Homology

Homologs of the Cx3cl1 gene: The Cx3cl1 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, and rat.
Orthologs from Annotation Pipeline: 260 organisms have orthologs with human gene Cx3cl1
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables CCR chemokine receptor binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables CX3C chemokine receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables CX3C chemokine receptor binding	ISO Inferred from Sequence Orthology more info
enables CXCR1 chemokine receptor binding	ISO Inferred from Sequence Orthology more info
enables chemoattractant activity	ISO Inferred from Sequence Orthology more info
enables chemokine activity	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables chemokine activity	ISO Inferred from Sequence Orthology more info
enables cytokine activity	IEA Inferred from Electronic Annotation more info
enables integrin binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in G protein-coupled receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in G protein-coupled receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within angiogenesis involved in wound healing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in autocrine signaling	ISO Inferred from Sequence Orthology more info
involved_in cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to interleukin-1	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in cellular response to tumor necrosis factor	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in cellular response to type II interferon	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in chemokine-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in chemokine-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in chemotaxis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cytokine-mediated signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in eosinophil chemotaxis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of extrinsic apoptotic signaling pathway in absence of ligand	IDA Inferred from Direct Assay more info	PubMed
involved_in immune response	IEA Inferred from Electronic Annotation more info
involved_in inflammatory response	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in inhibitory postsynaptic potential	ISO Inferred from Sequence Orthology more info
involved_in integrin activation	ISO Inferred from Sequence Orthology more info
involved_in leukocyte adhesive activation	IEA Inferred from Electronic Annotation more info
involved_in leukocyte migration involved in inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in lymphocyte chemotaxis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within lymphocyte chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in microglial cell activation	ISO Inferred from Sequence Orthology more info
involved_in microglial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in monocyte chemotaxis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of extrinsic apoptotic signaling pathway in absence of ligand	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of glutamate receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of hippocampal neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interleukin-1 alpha production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of microglial cell activation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of vasoconstriction	ISO Inferred from Sequence Orthology more info
involved_in neuron cellular homeostasis	ISO Inferred from Sequence Orthology more info
involved_in neutrophil chemotaxis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within neutrophil chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in platelet activation	ISO Inferred from Sequence Orthology more info
involved_in positive chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERK1 and ERK2 cascade	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in positive regulation of GTPase activity	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in positive regulation of I-kappaB kinase/NF-kappaB signaling	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of I-kappaB phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of NF-kappaB transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of actin filament bundle assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of calcium-independent cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of macrophage chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of microglial cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuroblast proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein kinase B signaling	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of release of sequestered calcium ion into cytosol	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of smooth muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transforming growth factor beta1 production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of lipopolysaccharide-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in response to ischemia	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within wound healing	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cell body	IDA Inferred from Direct Assay more info	PubMed
located_in cell projection	ISO Inferred from Sequence Orthology more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuron projection	IDA Inferred from Direct Assay more info	PubMed
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: fractalkine

Names: C-X3-C motif chemokine 1; CX3C membrane-anchored chemokine; neurotactin; small inducible cytokine subfamily D, 1; small-inducible cytokine D1

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_009142.3 → NP_033168.2 fractalkine precursor

See identical proteins and their annotated locations for NP_033168.2

Status: VALIDATED

Source sequence(s)

AC123826, AK138214, CB526167

Consensus CDS

CCDS22548.1

UniProtKB/Swiss-Prot

O35188, Q91V44

Related

ENSMUSP00000034230.6, ENSMUST00000034230.7

Conserved Domains (1) summary

cd00274
Location:25 → 100

Chemokine_CX3C; Chemokine_CX3C: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteines; differ structurally from the other subgroups in that they are attached to a membrane-spanning domain via a mucin-like stalk and can be proteolytically ...