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Aliases for CX3CL1 Gene

Aliases for CX3CL1 Gene

  • Chemokine (C-X3-C Motif) Ligand 1 2 3
  • Small Inducible Cytokine Subfamily D (Cys-X3-Cys), Member 1 (Fractalkine, Neurotactin) 2 3
  • CX3C Membrane-Anchored Chemokine 3 4
  • Small-Inducible Cytokine D1 3 4
  • C-X3-C Motif Chemokine 1 3 4
  • Neurotactin 3 4
  • SCYD1 3 4
  • NTT 3 4
  • Small Inducible Cytokine Subfamily D (Cys-X3-Cys), Member-1 3
  • Neurotactin) 6
  • Fractalkine 3
  • C3Xkine 3
  • ABCD-3 3
  • CXC3C 3
  • CXC3 3
  • NTN 3
  • FKN 4

External Ids for CX3CL1 Gene

Previous Symbols for CX3CL1 Gene

  • SCYD1

Summaries for CX3CL1 Gene

GeneCards Summary for CX3CL1 Gene

CX3CL1 (Chemokine (C-X3-C Motif) Ligand 1) is a Protein Coding gene. Diseases associated with CX3CL1 include chorioretinitis and pityriasis rosea. Among its related pathways are Signaling by GPCR and Akt Signaling. GO annotations related to this gene include receptor binding and chemokine activity.

UniProtKB/Swiss-Prot for CX3CL1 Gene

  • The soluble form is chemotactic for T-cells and monocytes, but not for neutrophils. The membrane-bound form promotes adhesion of those leukocytes to endothelial cells. May play a role in regulating leukocyte adhesion and migration processes at the endothelium. Binds to CX3CR1.

Gene Wiki entry for CX3CL1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CX3CL1 Gene

Genomics for CX3CL1 Gene

Genomic Location for CX3CL1 Gene

Start:
57,372,458 bp from pter
End:
57,385,048 bp from pter
Size:
12,591 bases
Orientation:
Plus strand

Genomic View for CX3CL1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CX3CL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CX3CL1 Gene

Regulatory Elements for CX3CL1 Gene

Proteins for CX3CL1 Gene

  • Protein details for CX3CL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P78423-X3CL1_HUMAN
    Recommended name:
    Fractalkine
    Protein Accession:
    P78423
    Secondary Accessions:
    • O00672

    Protein attributes for CX3CL1 Gene

    Size:
    397 amino acids
    Molecular mass:
    42203 Da
    Quaternary structure:
    • Monomer. Interacts with pox virus crmD; this inhibits cell migration mediated by CX3CL1.

    Three dimensional structures from OCA and Proteopedia for CX3CL1 Gene

neXtProt entry for CX3CL1 Gene

Proteomics data for CX3CL1 Gene at MOPED

Post-translational modifications for CX3CL1 Gene

  • A soluble short 95 kDa form may be released by proteolytic cleavage from the long membrane-anchored form.
  • O-glycosylated with core 1 or possibly core 8 glycans.
  • Modification sites at PhosphoSitePlus
  • Glycosylation at Asn33, Thr183, Ser253, Thr318, and Thr329

Other Protein References for CX3CL1 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for CX3CL1 Gene

Domains for CX3CL1 Gene

Gene Families for CX3CL1 Gene

HGNC:

Protein Domains for CX3CL1 Gene

Graphical View of Domain Structure for InterPro Entry

P78423

UniProtKB/Swiss-Prot:

X3CL1_HUMAN
Family:
  • Belongs to the intercrine delta family.:
    • P78423
genes like me logo Genes that share domains with CX3CL1: view

Function for CX3CL1 Gene

Molecular function for CX3CL1 Gene

UniProtKB/Swiss-Prot Function: The soluble form is chemotactic for T-cells and monocytes, but not for neutrophils. The membrane-bound form promotes adhesion of those leukocytes to endothelial cells. May play a role in regulating leukocyte adhesion and migration processes at the endothelium. Binds to CX3CR1.
UniProtKB/Swiss-Prot Induction: By TNF and IL1/interleukin-1 in pulmonary endothelial cells and umbilical vein endothelial cells

Gene Ontology (GO) - Molecular Function for CX3CL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 receptor binding TAS 12714508
GO:0005515 protein binding IPI 9931005
GO:0008009 chemokine activity TAS 12714508
genes like me logo Genes that share ontologies with CX3CL1: view
genes like me logo Genes that share phenotypes with CX3CL1: view

Animal Models for CX3CL1 Gene

MGI Knock Outs for CX3CL1:

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for CX3CL1 Gene

Localization for CX3CL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CX3CL1 Gene

Cell membrane; Single-pass type I membrane protein.
Processed fractalkine: Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CX3CL1 Gene COMPARTMENTS Subcellular localization image for CX3CL1 gene
Compartment Confidence
extracellular 5
plasma membrane 5
nucleus 2
cytoskeleton 1
lysosome 1
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for CX3CL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IDA 12714508
GO:0005615 extracellular space IEA --
GO:0005886 plasma membrane TAS --
GO:0009986 cell surface IDA 12714508
GO:0016020 membrane --
genes like me logo Genes that share ontologies with CX3CL1: view

Pathways for CX3CL1 Gene

genes like me logo Genes that share pathways with CX3CL1: view

Gene Ontology (GO) - Biological Process for CX3CL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006935 chemotaxis IDA 21829356
GO:0006952 defense response TAS 12714508
GO:0006955 immune response TAS 12714508
GO:0007155 cell adhesion IEA --
GO:0019221 cytokine-mediated signaling pathway TAS 11777952
genes like me logo Genes that share ontologies with CX3CL1: view

Compounds for CX3CL1 Gene

(7) Novoseek inferred chemical compound relationships for CX3CL1 Gene

Compound -log(P) Hits PubMed IDs
tarc 60.3 3
ccl4 26.1 4
forskolin 0 6
calcium 0 1
glutamate 0 1
genes like me logo Genes that share compounds with CX3CL1: view

Transcripts for CX3CL1 Gene

Unigene Clusters for CX3CL1 Gene

Chemokine (C-X3-C motif) ligand 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CX3CL1 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b
SP1:
SP2: -

Relevant External Links for CX3CL1 Gene

GeneLoc Exon Structure for
CX3CL1
ECgene alternative splicing isoforms for
CX3CL1

Expression for CX3CL1 Gene

mRNA expression in normal human tissues for CX3CL1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CX3CL1 Gene

This gene is overexpressed in Breast - Mammary Tissue (4.4).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for CX3CL1 Gene

SOURCE GeneReport for Unigene cluster for CX3CL1 Gene Hs.531668

mRNA Expression by UniProt/SwissProt for CX3CL1 Gene

P78423-X3CL1_HUMAN
Tissue specificity: Small intestine, colon, testis, prostate, heart, brain, lung, skeletal muscle, kidney and pancreas
genes like me logo Genes that share expressions with CX3CL1: view

Orthologs for CX3CL1 Gene

This gene was present in the common ancestor of mammals.

Orthologs for CX3CL1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CX3CL1 35
  • 99.16 (n)
  • 98.49 (a)
CX3CL1 36
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CX3CL1 35
  • 71.43 (n)
  • 58.47 (a)
CX3CL1 36
  • 53 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CX3CL1 35
  • 77.58 (n)
  • 69.33 (a)
CX3CL1 36
  • 67 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Cx3cl1 35
  • 73.33 (n)
  • 66.92 (a)
Cx3cl1 16
Cx3cl1 36
  • 66 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CX3CL1 36
  • 39 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CX3CL1 36
  • 39 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cx3cl1 35
  • 74.66 (n)
  • 70.1 (a)
Species with no ortholog for CX3CL1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CX3CL1 Gene

ENSEMBL:
Gene Tree for CX3CL1 (if available)
TreeFam:
Gene Tree for CX3CL1 (if available)

Paralogs for CX3CL1 Gene

genes like me logo Genes that share paralogs with CX3CL1: view

No data available for Paralogs for CX3CL1 Gene

Variants for CX3CL1 Gene

Sequence variations from dbSNP and Humsavar for CX3CL1 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type MAF
rs170361 -- 57,380,711(+) GTTGA(A/G)GACCC intron-variant
rs170363 -- 57,375,432(+) ggcca(G/T)agatg intron-variant
rs170364 -- 57,376,022(+) aaagt(G/T)gggat intron-variant
rs172783 -- 57,378,288(+) ggctt(A/G)catct intron-variant
rs182666 -- 57,379,229(+) tctga(A/G)gcagg intron-variant

Relevant External Links for CX3CL1 Gene

HapMap Linkage Disequilibrium report
CX3CL1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for CX3CL1 Gene

Disorders for CX3CL1 Gene

(16) Novoseek inferred disease relationships for CX3CL1 Gene

Disease -log(P) Hits PubMed IDs
chorioretinitis 40.5 1
atherosclerosis 30.1 2
rheumatoid arthritis 29.6 1
inflammation 29 11
necrosis 18.9 8

Relevant External Links for CX3CL1

Genetic Association Database (GAD)
CX3CL1
Human Genome Epidemiology (HuGE) Navigator
CX3CL1
genes like me logo Genes that share disorders with CX3CL1: view

No data available for UniProtKB/Swiss-Prot for CX3CL1 Gene

Publications for CX3CL1 Gene

  1. A new class of membrane-bound chemokine with a CX3C motif. (PMID: 9024663) Bazan J.F. … Schall T.J. (Nature 1997) 2 3 4 23
  2. Neurotactin, a membrane-anchored chemokine upregulated in brain inflammation. (PMID: 9177350) Pan Y. … Gearing D. (Nature 1997) 2 3 23
  3. Solution structure and dynamics of the CX3C chemokine domain of fractalkine and its interaction with an N-terminal fragment of CX3CR1. (PMID: 9931005) Mizoue L.S. … Handel T.M. (Biochemistry 1999) 3 4 23
  4. Polymorphisms of Fractalkine receptor CX3CR1 and plasma levels of its ligand CX3CL1 in colorectal cancer patients. (PMID: 17611763) Dimberg J. … WAYgsAoter D. (Int J Colorectal Dis 2007) 3 23 48
  5. Fractalkine receptor/ligand genetic variants and carotid intima-media thickness. (PMID: 19372452) Debette S. … Markus H.S. (Stroke 2009) 3 23 48

Products for CX3CL1 Gene

Sources for CX3CL1 Gene

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