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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

XCL1 Gene

protein-coding   GIFtS: 60
GCID: GC01P168545

Chemokine (C Motif) Ligand 1

(Previous names: small inducible cytokine subfamily C, member 1 (lymphotactin))
(Previous symbols: LTN, SCYC1)
Microbiology & Infectious Diseases Congress
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Chemokine (C Motif) Ligand 11 2     LPTN2 5
LTN1 2 3 5     SCM12 5
SCYC11 2 3 5     SCM-12
Small Inducible Cytokine Subfamily C, Member 1 (Lymphotactin)1 2     SCM-1a2
C Motif Chemokine 12 3     SCM1A2
Cytokine SCM-12 3     lymphotactin2
Small-Inducible Cytokine C12 3     lymphotaxin2
ATAC2 3     Single Cysteine Motif 1a2
SCM-1-alpha2 3     Lymphotaxin3
XC Chemokine Ligand 12 3     

External Ids:    HGNC: 106451   Entrez Gene: 63752   Ensembl: ENSG000001431847   OMIM: 6002505   UniProtKB: P479923   

Export aliases for XCL1 gene to outside databases

Previous GC identifers: GC01P166180 GC01P164196 GC01P165241 GC01P165733 GC01P165277 GC01P166812 GC01P139791


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for XCL1 Gene:
This gene encodes a member of the chemokine superfamily. Chemokines function in inflammatory and immunological
responses, inducing leukocyte migration and activation. The encoded protein is a member of the C-chemokine
subfamily, retaining only two of four cysteines conserved in other chemokines, and is thought to be specifically
chemotactic for T cells. This gene and a closely related family member are located on the long arm of chromosome
1. (provided by RefSeq, Nov 2010)

GeneCards Summary for XCL1 Gene: 
XCL1 (chemokine (C motif) ligand 1) is a protein-coding gene. Diseases associated with XCL1 include renal tuberculosis, and dacryoadenitis, and among its related super-pathways are Chemokine signaling pathway and Signaling by GPCR. GO annotations related to this gene include chemokine receptor binding and protein homodimerization activity. An important paralog of this gene is XCL2.

UniProtKB/Swiss-Prot: XCL1_HUMAN, P47992
Function: Chemotactic activity for lymphocytes but not for monocytes or neutrophils




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004487.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the XCL1 gene promoter:
         FOXI1   HFH-3   C/EBPbeta   AML1a   NRSF form 1   STAT3   POU3F2 (N-Oct-5a)   POU3F2 (N-Oct-5b)   POU3F2   NRSF form 2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidXCL1 promoter sequence
   Search SABiosciences Chromatin IP Primers for XCL1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat XCL1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1q23   Ensembl cytogenetic band:  1q24.2   HGNC cytogenetic band: 1q24.2

XCL1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
XCL1 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P168545:  view genomic region     (about GC identifiers)

Start:
168,545,711 bp from pter      End:
168,551,315 bp from pter
Size:
5,605 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: XCL1_HUMAN, P47992 (See protein sequence)
Recommended Name: Lymphotactin precursor  
Size: 114 amino acids; 12517 Da
Subcellular location: Secreted
5 PDB 3D structures from and Proteopedia for XCL1:
1J8I (3D)        1J9O (3D)        2HDM (3D)        2JP1 (3D)        2NYZ (3D)    
Secondary accessions: Q52MA8

Explore the universe of human proteins at neXtProt for XCL1: NX_P47992

Explore proteomics data for XCL1 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P47992

  • XCL1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    XCL1 Protein Expression
    REFSEQ proteins: NP_002986.1  
    ENSEMBL proteins: 
     ENSP00000356792  
    Reactome Protein details: P47992
    Human Recombinant Protein Products for XCL1: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    R&D Systems Recombinant & Natural Proteins for XCL1 (XCL1/Lymphotactin)
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    OriGene Protein Over-expression Lysate for XCL1
    OriGene Custom MassSpec 
    OriGene Custom Protein Services for XCL1
    GenScript Purified and Recombinant Proteins for XCL1
    Novus Biologicals XCL1 Proteins
    Novus Biologicals XCL1 Lysate
    Sino Biological Recombinant Protein for XCL1
    Sino Biological Cell Lysate for XCL1 
    ProSpec Recombinant Protein for XCL1
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005615extracellular space ISS--

    XCL1 for ontologies           About GeneDecksing



    XCL1 Antibody Products: 
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    GenScript Superior Antibodies for XCL1
    Novus Biologicals XCL1 Antibodies
    Abcam antibodies for XCL1
    Browse Antibodies at Cloud-Clone Corp. 
    ThermoFisher Antibodies for XCL1
    LSBio Antibodies in human, mouse, rat for XCL1 

    Assay Products for XCL1: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for XCL1
    R&D Systems ELISAs for XCL1 (XCL1/Lymphotactin)         (see all)
    GenScript Custom Assay Services for XCL1
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp. 
    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    ENDOLIG: Endogenous ligands

    2 InterPro protein domains:
     IPR001811 Chemokine_IL8-like_dom
     IPR008105 Chemokine_XCL1

    Graphical View of Domain Structure for InterPro Entry P47992

    ProtoNet protein and cluster: P47992

    1 Blocks protein domain: IPB008105 Lymphotactin precursor signature

    UniProtKB/Swiss-Prot: XCL1_HUMAN, P47992
    Similarity: Belongs to the intercrine gamma family


    XCL1 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: XCL1_HUMAN, P47992
    Function: Chemotactic activity for lymphocytes but not for monocytes or neutrophils

         Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008009chemokine activity IDA7602097
    GO:0042379chemokine receptor binding NAS7602097
    GO:0042803protein homodimerization activity IDA11889129
         
    XCL1 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for XCL1:
     Decreased viability 

         7 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Xcl1):
     cardiovascular system  digestive/alimentary  endocrine/exocrine gland  hematopoietic system  immune system 
     liver/biliary system  vision/eye 

    XCL1 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for XCL1: Xcl1tm1.1Dnax Xcl1tm1Rakr

       inGenious Targeting Laboratory - Custom generated mouse model solutions for XCL1 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for XCL1

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for XCL1 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for XCL1 

    miRNA
    Products:
        
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat XCL1
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate XCL1
    SwitchGear 3'UTR luciferase reporter plasmidXCL1 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for XCL1
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat XCL1

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for XCL1
    Sirion Biotech Customized adenovirus for overexpression of XCL1

    Clone
    Products:
         
    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for XCL1 (see all 7)
    OriGene ORF clones in mouse, rat for XCL1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: XCL1 (NM_001511)
    Sino Biological Human cDNA Clone for XCL1
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for XCL1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XCL1
    Sirion Biotech Customized lentivirus for stable overexpression of XCL1 
                         Customized lentivirus expression plasmids for stable overexpression of XCL1 

    Cell Line
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    Search LifeMap BioReagents cell lines for XCL1
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XCL1


    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for XCL1 About   (see all 8)                                                                                              See pathways by source

    SuperPathContained pathways About
    1Chemokine Signaling
    Chemokine Signaling0.33
    Chemokine signaling pathway0.33
    2Signaling by GPCR
    Signaling by GPCR0.90
    Signal Transduction0.55
    GPCR downstream signaling0.90
    3Class A/1 (Rhodopsin-like receptors)
    Class A/1 (Rhodopsin-like receptors)0.71
    Peptide ligand-binding receptors0.60
    GPCR ligand binding0.71
    4G alpha (q) signalling events
    Gastrin-CREB signalling pathway via PKC and MAPK0.90
    G alpha (q) signalling events0.90
    5Cell adhesion Cell-matrix glycoconjugates
    Cell adhesion Cell-matrix glycoconjugates0.97

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for XCL1
        Cell adhesion Cell-matrix glycoconjugates

    2 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for XCL1
        Chemokine Signaling
    Transendothelial Migration of Leukocytes

    1 GeneGo (Thomson Reuters) Pathway for XCL1
        Cell adhesion Cell-matrix glycoconjugates


    5/9        Reactome Pathways for XCL1 (see all 9)
        GPCR downstream signaling
    Peptide ligand-binding receptors
    Gastrin-CREB signalling pathway via PKC and MAPK
    Signaling by GPCR
    GPCR ligand binding


    2         Kegg Pathways  (Kegg details for XCL1):
        Cytokine-cytokine receptor interaction
    Chemokine signaling pathway


    XCL1 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for XCL1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 19)

    5/19 Interacting proteins for XCL1 (P479923 ENSP000003567924) via UniProtKB, MINT, STRING, and/or I2D (see all 19)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    VCANP136113, ENSP000002650774I2D: score=1 STRING: ENSP00000265077
    XCR1P460943, ENSP000003104054I2D: score=1 STRING: ENSP00000310405
    CCR1ENSP000002961404STRING: ENSP00000296140
    CCR10ENSP000003325044STRING: ENSP00000332504
    CCR2ENSP000002923014STRING: ENSP00000292301
    About this table

    Gene Ontology (GO): 5/36 biological process terms (GO ID links to tree view) (see all 36):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001916positive regulation of T cell mediated cytotoxicity IDA18832695
    GO:0002690positive regulation of leukocyte chemotaxis ISS--
    GO:0002725negative regulation of T cell cytokine production IDA10887101
    GO:0002726positive regulation of T cell cytokine production ISS--
    GO:0002826negative regulation of T-helper 1 type immune response IC10887101

    XCL1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    XCL1 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for XCL1

    10/11 Novoseek inferred chemical compound relationships for XCL1 gene (see all 11)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    rantes 84.4 33 9393669 (1), 10942204 (1), 14734774 (1), 19397398 (1) (see all 29)
    ccl3 54.3 4 14734774 (1), 18179747 (1)
    ccl4 28.9 5 14734774 (1), 12427307 (1), 18179747 (1)
    cysteine 19.3 7 9393669 (1), 9632725 (1), 8977329 (1), 7602097 (1) (see all 5)
    wortmannin 15.4 2 10887101 (1), 10092776 (1)
    cyclosporin a 14.6 4 12393716 (1), 7615002 (1), 11696436 (1)
    heparin 6.63 4 14707146 (2), 19480914 (1), 9079718 (1)
    tacrolimus 3.26 1 11696436 (1)
    nacl 0 1 17302442 (1)
    calcium 0 5 9271361 (2), 7615002 (2), 7602097 (1)

    Search CenterWatch for drugs/clinical trials and news about XCL1

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for XCL1 gene: 
    NM_002995.2  

    Unigene Cluster for XCL1:

    Chemokine (C motif) ligand 1
    Hs.546295  [show with all ESTs]
    Unigene Representative Sequence: NM_002995
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000367818(uc001gfo.2)
    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat XCL1
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate XCL1
    SwitchGear 3'UTR luciferase reporter plasmidXCL1 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for XCL1
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat XCL1
    Clone
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    OriGene clones in human, mouse for XCL1 (see all 7)
    OriGene ORF clones in mouse, rat for XCL1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: XCL1 (NM_001511)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for XCL1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XCL1
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                         Customized lentivirus expression plasmids for stable overexpression of XCL1 
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for XCL1
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat XCL1
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat XCL1

    Additional mRNA sequence: 

    BC069817.1 BC070309.1 D43768.1 U23772.1 X86474.1 

    3 DOTS entries:

    DT.109036  DT.100735017  DT.91854396 

    23 AceView cDNA sequences:

    BX282187 BE348632 D43768 BF433809 AI669817 NM_002995 AI969003 AW134570 
    BC070309 BQ005208 U23772 CD522000 AW050650 BE466930 X86474 AI651995 
    BV198119 AI298976 AW050525 CB120610 CD639746 BG214157 AA650495 

    GeneLoc Exon Structure


    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    XCL1 expression in normal human tissues (normalized intensities)      XCL1 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    XCL1 Expression
    About this image


    XCL1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/4 selected tissues (see all 4) fully expand
     
     Blood (Cardiovascular System)    fully expand to see all 2 entries
             T-Cytotoxic Cells Thymus
             nk cells   
     
     Bone (Muscoskeletal System)    fully expand to see all 2 entries
             Bone marrow-derived mesenchymal stem cells (Stempeucel)
     
     Mesenchymal Stem Cells
             Bone marrow-derived mesenchymal stem cells (Stempeucel)
     
     Thymus (Hematopoietic System)
             T-Cytotoxic Cells Thymus

    See XCL1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for XCL1

    SOURCE GeneReport for Unigene cluster: Hs.546295

    UniProtKB/Swiss-Prot: XCL1_HUMAN, P47992
    Tissue specificity: Highest level in spleen, lower in peripheral leukocytes and very low levels in lung, colon and
    small intestine

        SABiosciences Expression via Pathway-Focused PCR Arrays including XCL1: 
              HIV Host Response in human mouse rat
              Cytokines & Chemokines in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Chemokines & Receptors in human mouse rat

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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat XCL1
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XCL1

    (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)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for XCL1 gene from 2/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Xcl11 , 5 chemokine (C motif) ligand 11, 5 73.39(n)1
    60.53(a)1
      1 (72.26 cM)5
    169631  NM_008510.11  NP_032536.11 
     1649316445 
    chicken
    (Gallus gallus)
    Aves SCYC16
    lymphotactin precursor
    30(a)
    1 → many
    1(83400070-83404445)


    ENSEMBL Gene Tree for XCL1 (if available)
    TreeFam Gene Tree for XCL1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for XCL1 gene
    XCL22  
    15 SIMAP similar genes for XCL1 using alignment to 1 protein entry:     XCL1_HUMAN:
    XCL2    CCL8    CCL13    CCL11    CCL14    CCL3L1
    CCL3L3    CCL26    CCL24    CCL4L1    CCL4L2    LOC728835
    CCL5    CCL7    MCP-3

    XCL1 for paralogs           About GeneDecksing



    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/254 SNPs in XCL1 are shown (see all 254)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1877520811,2
    --168543718(+) GGAGAA/CGCAGG 1 -- us2k10--------
    rs4707391,2
    C,F,O,A--168543747(-) CTCATG/TGTGTT 1 -- us2k12Minor allele frequency- T:0.47WA NA 238
    rs43045521,2
    C,F,A,H--168543756(+) AGATTC/AGTTGC 1 -- us2k112Minor allele frequency- A:0.44NS EA NA 1476
    rs2018630061,2
    C--168543846(+) GGAAA-/CTTATA 1 -- us2k10--------
    rs1931413261,2
    --168543907(+) CCAGTC/TAAAGG 1 -- us2k10--------
    rs1406355811,2
    C--168544060(+) ATCACA/TGTGAA 1 -- us2k10--------
    rs1827723881,2
    --168544062(+) CACAGC/TGAAAG 1 -- us2k10--------
    rs5525681,2
    A--168544083(+) catccC/Tatagg 1 -- us2k12Minor allele frequency- T:0.00NA 4
    rs340384451,2
    C--168544084(+) ATCCCG/ATAGGC 1 -- us2k17Minor allele frequency- A:0.37NA WA CSA EA 365
    rs1875077971,2
    --168544144(+) GAGGCA/TTTACA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for XCL1 (168545711 - 168551315 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for XCL1:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2661292CNV Deletion23128226
    nsv831836CNV Gain+Loss17160897

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 600250    OMIM disorders: --

    20/27 diseases for XCL1 (see all 27):    About MalaCards
    renal tuberculosis    dacryoadenitis    t-lymphocytopenia    allergic asthma
    hiv type 1    wegener's granulomatosis    pertussis    myocarditis
    essential hypertension    crohn's disease    chronic lymphocytic leukemia    rheumatoid arthritis
    neuroblastoma    asthma    hypertension    tuberculosis
    multiple sclerosis    arthritis    hepatitis b    t-cell leukemia

    1 disease from the University of Copenhagen DISEASES database for XCL1:
    Renal tuberculosis

    XCL1 for disorders           About GeneDecksing

    5 Novoseek inferred disease relationships for XCL1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    inflammation 26.7 3 19797511 (1), 9013979 (1), 11696436 (1)
    rheumatoid arthritis 2.62 4 12847680 (2)
    necrosis 0 1 15614041 (1)
    tumors 0 4 12406881 (1), 17397028 (1), 15614041 (1), 17471169 (1)
    cancer 0 3 15547752 (1), 20225245 (1)

    Genetic Association Database (GAD): XCL1
    Human Genome Epidemiology (HuGE) Navigator: XCL1 (5 documents)

    Export disorders for XCL1 gene to outside databases

    (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)
    About This Section

    PubMed articles for XCL1 gene, integrated from 9 sources (see all 126):
    (articles sorted by number of sources associating them with XCL1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular cloning of a novel C or gamma type chemokine, SCM-1. (PubMed id 7875320)1, 2, 3, 9 Yoshida T.... Yoshie O. (1995)
    2. Molecular cloning and functional characterization of human lymphotactin. (PubMed id 7602097)1, 2, 3, 9 Kennedy J.... Zlotnik A. (1995)
    3. Cloning of ATAC, an activation-induced, chemokine-related molecule exclusively expressed in CD8+ T lymphocytes. (PubMed id 7615002)1, 2, 9 Mueller S.... Kroczek R.A. (1995)
    4. Monomeric solution structure of the prototypical 'C' chemokine lymphotactin. (PubMed id 11601972)1, 2, 9 Kuloglu E.S....Volkman B.F. (2001)
    5. Follow-up of a major linkage peak on chromosome 1 rev eals suggestive QTLs associated with essential hypertension: GenNet study. (PubMed id 19536175)1, 4 Ehret G.B....Chakravarti A. (2009)
    6. Pre-B-cell leukemia homeobox 1 (PBX1) shows functional and possible genetic association with bone mineral density variation. (PubMed id 19064610)1, 4 Cheung C.L....Kung A.W. (2009)
    7. Genetic variants in apoptosis and immunoregulation-related genes are associated with risk of chronic lymphocytic leukemia. (PubMed id 19074885)1, 4 Enjuanes A....Campo E. (2008)
    8. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
    9. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    10. Structure and expression of two highly related genes encoding SCM- 1/human lymphotactin. (PubMed id 8849694)1, 2 Yoshida T....Yoshie O. (1996)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 6375 HGNC: 10645 AceView: XCL1 Ensembl:ENSG00000143184 euGenes: HUgn6375
    ECgene: XCL1 Kegg: 6375 H-InvDB: XCL1

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for XCL1 Pharmacogenomics, SNPs, Pathways
    Wikipedia http://en.wikipedia.org/wiki/XCL1

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for XCL1 gene:
    Search GeneIP for patents involving XCL1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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