CX3CL1 Gene

Aliases
for CX3CL1 gene

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, ¹⁰fRNAdb, ¹²H-InvDB, ¹³NCBI, ¹⁴NONCODE, and/or ¹⁵RNAdb)
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Previous GC identifers: GC16P047801 GC16P057466 GC16P057140 GC16P057181 GC16P057162 GC16P055963 GC16P043274

Summaries
for CX3CL1 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Genomic Views
for CX3CL1 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:

NC_000016.9  NC_018927.2  NT_010498.16  

SwitchGear Promoter luciferase reporter plasmid: CX3CL1 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CX3CL1

CX3CL1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16P057406:  view genomic region     (about GC identifiers)

Proteins
for CX3CL1 gene

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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3 PDB 3D structures from and Proteopedia for CX3CL1:

1B2T (3D)        1F2L (3D)        3ONA (3D)    

Explore the universe of human proteins at neXtProt for CX3CL1: NX_P78423

Explore proteomics data for CX3CL1 at MOPED

Post-translational modifications: 

CX3CL1 Human Recombinant Protein Products:

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	Cloud-Clone Corp. Proteins for CX3CL1
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	antibodies-online proteins for CX3CL1 (68 products)
	antibodies-online peptides for CX3CL1

CX3CL1 Antibody Products:

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	ThermoFisher Antibody for CX3CL1
	antibodies-online antibodies for CX3CL1 (105 products)

CX3CL1 Assay Products:

	Browse Kits and Assays available from EMD Millipore
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	R&D Systems Flow Cytometry Kits for CX3CL1 (CX3CL1/Fractalkine)         (see all)
	GenScript Custom Assay Services for CX3CL1
	Browse Enzo Life Sciences for kits & assays
	Cloud-Clone Corp. ELISAs for CX3CL1 Cloud-Clone Corp. CLIAs for CX3CL1
	Search eBioscience for ELISAs for CX3CL1
	antibodies-online kits for CX3CL1 (48 products)

Domains /
Families
for CX3CL1 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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ProtoNet protein and cluster: P78423

Find genes that share domains with CX3CL1           About GenesLikeMe

Function
for CX3CL1 gene

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 3 molecular function terms:    About this table

(inferred from 2 alleles) (MGI details for Cx3cl1)

genOway: Develop your customized and physiologically relevant rodent model for CX3CL1

miRNA Products:		Block miRNA regulation of human, mouse, rat CX3CL1 using miScript Target Protectors
		Selected qRT-PCR Assays for microRNAs that regulate CX3CL1 (see all 35):
		hsa-miR-21* hsa-miR-185* hsa-miR-106a hsa-miR-509-5p hsa-miR-15a hsa-miR-29a hsa-miR-29c hsa-let-7a-2*
		SwitchGear 3'UTR luciferase reporter plasmid: CX3CL1 3' UTR sequence

Inhib. RNA Products:		OriGene RNAi products in human, mouse, rat for CX3CL1
		Predesigned siRNA for gene silencing in human, mouse, rat CX3CL1

Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for CX3CL1

Clone Products:		OriGene clones in human, mouse for CX3CL1 (see all 6) OriGene ORF clones in mouse, rat for CX3CL1 OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector: CX3CL1 (NM_002996)
		Sino Biological Human cDNA Clone for CX3CL1
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for CX3CL1
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CX3CL1

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for CX3CL1
		Browse ESI BIO Cell Lines and PureStem Progenitors for CX3CL1

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CX3CL1

Localization
for CX3CL1 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from COMPARTMENTS: 

Compartment	Confidence
extracellular	5
plasma membrane	5
nucleus	2
cytoskeleton	1
lysosome	1
mitochondrion	1
peroxisome	1

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Gene Ontology (GO): 6 cellular component terms (see first 5):    About this table

Pathways & Interactions
for CX3CL1 gene

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for CX3CL1 About   (see all 12)   See pathways by source

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	SuperPath	Selected contained pathways About (see all per SuperPath)
1	PEDF Induced Signaling	MIF Regulation of Innate Immune Cells 0.94 IL-6 Pathway 0.61 MIF Mediated Glucocorticoid Regulation 0.94 STAT3 Pathway 0.47 PEDF Induced Signaling 0.73 Endothelin-1 Signaling Pathway 0.46 all-trans-Retinoic Acid Signaling in Brain 0.71 Cytokine-cytokine receptor interaction 0.43
2	Chemokine Superfamily: Human/Mouse Ligand-Receptor Interactions	Chemokine receptors bind chemokines 0.81 Chemokine Superfamily: Human/Mouse Ligand-Receptor Interactions 0.81
3	Chemokine Signaling	Chemokine Signaling 0.33 Chemokine signaling pathway 0.33
4	Peptide ligand-binding receptors	Class A/1 (Rhodopsin-like receptors) 0.71 Peptide ligand-binding receptors 0.60 GPCR ligand binding 0.71
5	ERK Signaling	ERK Signaling 0.61 Molecular Mechanisms of Cancer 0.51 Rho Family GTPases 0.61

2 R&D Systems Pathways for CX3CL1

	A-beta Uptake & Degradation
	Chemokine Superfamily: Human/Mouse Ligand-Receptor Interactions

Selected Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for CX3CL1

	Endothelin-1 Signaling Pathway
	Molecular Mechanisms of Cancer
	Antioxidant Action of Vitamin-C
	Transendothelial Migration of Leukocytes
	MIF Mediated Glucocorticoid Regulation

1 BioSystems Pathway for CX3CL1

Direct p53 effectors

1 Reactome Pathway for CX3CL1

Chemokine receptors bind chemokines

3 Kegg Pathways  (Kegg details for CX3CL1)

	Cytokine-cytokine receptor interaction
	Chemokine signaling pathway
	TNF signaling pathway

Gene Ontology (GO): Selected biological process terms (see all 18):    About this table

Drugs & Compounds
for CX3CL1 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Transcripts
for CX3CL1 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Expression
for CX3CL1 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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CX3CL1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: GACAAGGATG

About this image

Brain (Nervous System)    fully expand to see all 3 entries
Cerebellum
Bone (Muscoskeletal System)
Mesenchymal Condensate Cells Zeugopod
Cartilage (Muscoskeletal System)
Mesenchymal Condensate Cells Zeugopod
Trophoblast (Extraembryonic Tissues)
Trophoblast Cells Trophoblast
Ovary (Reproductive System)
Oviduct

Primer Products:		OriGene qPCR primer pairs and template standards for CX3CL1 OriGene qSTAR qPCR primer pairs in human, mouse for CX3CL1
		Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CX3CL1
		QuantiTect SYBR Green Assays in human, mouse, rat CX3CL1
		QuantiFast Probe-based Assays in human, mouse, rat CX3CL1

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CX3CL1

Orthologs
for CX3CL1 gene

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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Paralogs
for CX3CL1 gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
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Paralogs for CX3CL1 gene

17 SIMAP similar genes for CX3CL1 using alignment to 6 protein entries:     X3CL1_HUMAN (see all proteins):

CCL11    CCL8    CCL2    CCL7    MCP-3    LOC728835

CCL18    CCL3    CCL3L1    CCL3L3    CCL4L2    CCL14

CCL4L1    CCL4    CCL13    CCL17    CCL26

Find genes that share paralogs with CX3CL1           About GenesLikeMe

Genomic Variants
for CX3CL1 gene

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, ⁴UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for CX3CL1 (see all 404)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 16 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs1127113411,2	C	--	57413239(+)	AACTC-/AAAAAA	1	--	int1		1		CSA	2
rs1148475501,2	C,F	--	58417566(+)	TATGGA/GCATAA	1	--	us2k1		1		WA	118
rs1477329091,2		--	58417596(+)	TGGTCC/TTCGCA	1	--	us2k1		0	--	--	--	--
rs1425537151,2	C	--	58417601(+)	CTCGCA/GGTGAG	1	--	us2k1		0	--	--	--	--
rs1448602201,2	C	--	58417671(+)	GGGACA/GAATCC	1	--	us2k1		0	--	--	--	--
rs1458018911,2		--	58417761(+)	TCACCC/GAGGCT	1	--	us2k1		0	--	--	--	--
rs1488627481,2		--	58417779(+)	AGTGGC/TGTGAT	1	--	us2k1		0	--	--	--	--
rs71967071,2	C	--	58417800(+)	tgcaaC/Tcctct	1	--	us2k1		0	--	--	--	--
rs1911364121,2		--	58417827(+)	CGATTC/TTCCTG	1	--	us2k1		0	--	--	--	--
rs1434945261,2	C	--	58417896(+)	ATTTTC/TAGTAG	1	--	us2k1		0	--	--	--	--

HapMap Linkage Disequilibrium report for CX3CL1 (57406370 - 57418960 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for CX3CL1: --

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing CX3CL1

DNA2.0 Custom Variant and Variant Library Synthesis for CX3CL1

Disorders / Diseases
for CX3CL1 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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4 diseases for CX3CL1

Selected Novoseek inferred disease relationships for CX3CL1 gene (see all 16)    About this table

Publications
for CX3CL1 gene

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
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PubMed articles for CX3CL1 gene, integrated from 10 sources (see all 253): (articles sorted by number of sources associating them with CX3CL1)

Utopia: connect your pdf to the dynamic world of online information

1. A new class of membrane-bound chemokine with a CX3C motif. (PubMed id 9024663)^{1, 2, 3, 9} Bazan J.F.... Schall T.J. (Nature 1997)
2. Neurotactin, a membrane-anchored chemokine upregulated in brain inflammation. (PubMed id 9177350)^{1, 3, 9} Pan Y....Gearing D. (Nature 1997)
3. Polymorphisms of Fractalkine receptor CX3CR1 and plasma levels of its ligand CX3CL1 in colorectal cancer patients. (PubMed id 17611763)^{1, 4, 9} Dimberg J....WAYgsAoter D. (Int J Colorectal Dis 2007)
4. Fractalkine receptor/ligand genetic variants and carotid intima-media thickness. (PubMed id 19372452)^{1, 4, 9} Debette S....Markus H.S. ( a journal of cerebral circulation 2009)
5. Solution structure and dynamics of the CX3C chemokine domain of fractalkine and its interaction with an N-terminal fragment of CX3CR1. (PubMed id 9931005)^{1, 2, 9} Mizoue L.S.... Handel T.M. (Biochemistry 1999)
6. Common polymorphisms in ITGA2, PON1 and THBS2 are associated with coronary atherosclerosis in a candidate gene association study of the Chinese Han population. (PubMed id 20485444)^{1, 4} Wang Y....Huang W. (J. Hum. Genet. 2010)
7. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)^{1, 4} Bailey S.D....Anand S. (Diabetes Care 2010)
8. Candidate gene polymorphisms for ischemic stroke. (PubMed id 19729601)^{1, 4} Matarin M....Meschia J.F. ( a journal of cerebral circulation 2009)
9. CX3CR1 polymorphisms are associated with atopy but not asthma in German children. (PubMed id 17505143)^{1, 4} Depner M....Kabesch M. (Int. Arch. Allergy Immunol. 2007)
10. Polymorphisms in the 3' untranslated region of the fractalkine (CX3CL1) gene and the risk of HIV-1 infection and disease progression. (PubMed id 17415055)^{1, 4} Peraire J....Broch M. (AIDS 2007)

External Searches for CX3CL1 gene

Genome Databases showing CX3CL1 gene

Other Databases showing CX3CL1 gene

Specialized Databases showing CX3CL1 gene

Products
for CX3CL1 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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