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Aliases for CX3CL1 Gene

Aliases for CX3CL1 Gene

  • C-X3-C Motif Chemokine Ligand 1 2 3
  • Chemokine (C-X3-C Motif) Ligand 1 2 3 5
  • 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
  • Fractalkine 3
  • C3Xkine 3
  • ABCD-3 3
  • CXC3C 3
  • CXC3 3
  • NTN 3
  • FKN 4

External Ids for CX3CL1 Gene

Previous HGNC Symbols for CX3CL1 Gene

  • SCYD1

Previous GeneCards Identifiers for CX3CL1 Gene

  • GC16P047801
  • GC16P057466
  • GC16P057140
  • GC16P057181
  • GC16P057162
  • GC16P055963
  • GC16P057406
  • GC16P043274

Summaries for CX3CL1 Gene

GeneCards Summary for CX3CL1 Gene

CX3CL1 (C-X3-C Motif Chemokine Ligand 1) is a Protein Coding gene. Diseases associated with CX3CL1 include rheumatoid vasculitis and tauopathy. Among its related pathways are Signaling by GPCR and A-beta Pathways: Uptake and Degradation. 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

Regulatory Elements for CX3CL1 Gene

Promoters for CX3CL1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around CX3CL1 on UCSC Golden Path with GeneCards custom track

Genomic Location for CX3CL1 Gene

Chromosome:
16
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

Genes around CX3CL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CX3CL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CX3CL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence 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.
  • Glycosylation at Asn 33, Thr 183, Ser 253, Thr 318, and Thr 329
  • Modification sites at PhosphoSitePlus

Other Protein References for CX3CL1 Gene

Antibody Products

  • R&D Systems Antibodies for CX3CL1 (CX3CL1/Fractalkine)

No data available for DME Specific Peptides for CX3CL1 Gene

Domains & Families for CX3CL1 Gene

Gene Families for CX3CL1 Gene

Protein Domains for CX3CL1 Gene

Graphical View of Domain Structure for InterPro Entry

P78423

UniProtKB/Swiss-Prot:

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

Animal Models for CX3CL1 Gene

MGI Knock Outs for CX3CL1:

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets 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
cytosol 1
lysosome 1
mitochondrion 1
peroxisome 1
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for CX3CL1 Gene

Pathways & Interactions for CX3CL1 Gene

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

SIGNOR curated interactions for CX3CL1 Gene

Activates:

Gene Ontology (GO) - Biological Process for CX3CL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001666 response to hypoxia IEA --
GO:0001774 microglial cell activation IEA --
GO:0002548 monocyte chemotaxis IBA --
GO:0006954 inflammatory response IBA --
GO:0006955 immune response IEA,TAS 12714508
genes like me logo Genes that share ontologies with CX3CL1: view

Drugs & Compounds for CX3CL1 Gene

(5) Drugs for CX3CL1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for CX3CL1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
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 differential expression in normal tissues according to GTEx for CX3CL1 Gene

This gene is overexpressed in Breast - Mammary Tissue (x4.4).

Protein differential expression in normal tissues from HIPED for CX3CL1 Gene

This gene is overexpressed in Bone (57.4) and Heart (10.8).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with CX3CL1: view

Protein tissue co-expression partners for CX3CL1 Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for CX3CL1 Gene

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 36
  • 53 (a)
OneToOne
CX3CL1 35
  • 71.43 (n)
  • 58.47 (a)
dog
(Canis familiaris)
Mammalia CX3CL1 35
  • 77.58 (n)
  • 69.33 (a)
CX3CL1 36
  • 67 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Cx3cl1 36
  • 66 (a)
OneToOne
Cx3cl1 16
Cx3cl1 35
  • 73.33 (n)
  • 66.92 (a)
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
rs35860084 - 57,382,557(+) GAATG(C/T)TCCGT reference, missense
rs719695 -- 57,378,218(-) GTGGG(G/T)TCTGC intron-variant
rs643622 -- 57,385,115(+) CAGGG(C/G)TGGGG downstream-variant-500B
rs645867 -- 57,379,064(+) gctca(A/C)gcctg intron-variant
rs666301 -- 57,373,318(+) TAACC(A/T)TCCTA intron-variant

Variation tolerance for CX3CL1 Gene

Residual Variation Intolerance Score: 58.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.08; 22.06% of all genes are more intolerant (likely to be disease-causing)

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

MalaCards: The human disease database

(5) MalaCards diseases for CX3CL1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
rheumatoid vasculitis
tauopathy
  • tauopathies
primary biliary cirrhosis
  • biliary liver cirrhosis
eye disease
  • eye diseases
african tick-bite fever
  • rickettsia africae spotted fever
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for CX3CL1

Genetic Association Database (GAD)
CX3CL1
Human Genome Epidemiology (HuGE) Navigator
CX3CL1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CX3CL1
genes like me logo Genes that share disorders with CX3CL1: view

No data available for UniProtKB/Swiss-Prot and Genatlas 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 67
  2. Neurotactin, a membrane-anchored chemokine upregulated in brain inflammation. (PMID: 9177350) Pan Y. … Gearing D. (Nature 1997) 2 3 23
  3. Upregulation of fractalkine and its receptor, CX3CR1, is associated with coronary plaque rupture in patients with unstable angina pectoris. (PMID: 20019415) Ikejima H. … Akasaka T. (Circ. J. 2010) 3 23
  4. Rosiglitazone activation of PPARgamma suppresses fractalkine signaling. (PMID: 19850645) Wan Y. … Evans R.M. (J. Mol. Endocrinol. 2010) 3 23
  5. Characterization of synergistic induction of CX3CL1/fractalkine by TNF-alpha and IFN-gamma in vascular endothelial cells: an essential role for TNF-alpha in post-transcriptional regulation of CX3CL1. (PMID: 20231691) Matsumiya T. … Satoh K. (J. Immunol. 2010) 3 23

Products for CX3CL1 Gene

Sources for CX3CL1 Gene

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