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CXCL12 Gene

protein-coding   GIFtS: 60

GC10M041391
chemokine (C-X-C motif) ligand 12
(Previous name: stromal cell-derived factor 1 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbols: SDF1A, SDF1B, SDF1)
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases & Descriptions
chemokine (C-X-C motif) ligand 121 2     SDF1B2 3
PBSF1 2 3     TLSF-b1
SDF12 3 5     SDF-1b1
TPAR11 2     TLSF-a1
SCYB121 2     SDF-1a1
stromal cell-derived factor 11 2     TLSF2
Pre-B cell growth-stimulating factor2 3     hSDF-13
Intercrine reduced in hepatomas2 3     SDF-13
SDF1A2 3     hIRH3
IRH2 3     C-X-C motif chemokine 123

External Ids:    HGNC: 106721   Entrez Gene: 63872   Ensembl: ENSG000001075627   UniProtKB: P480613   

Export aliases for CXCL12 gene to outside databases

Previous GC identifers: GC10M044154 GC10M044334 GC10M044640 GC10M044149 GC10M044185 GC10M044865


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

Entrez Gene summary for CXCL12:
This gene encodes a stromal cell-derived alpha chemokine member of the intercrine family. This gene product and its
receptor CXCR4 can activate lymphocytes and have been implicated in the metastasis of some cancers such as breast
cancer. Mutations in this gene are associated with resistance to human immunodeficiency virus type 1 infections.
Multiple transcript variants encoding different isoforms have been found for this gene.

UniProtKB/Swiss-Prot: SDF1_HUMAN, P48061
Function: Chemoattractant active on T-lymphocytes, monocytes, but not neutrophils. Activates the C-X-C chemokine
receptor CXCR4 to induce a rapid and transient rise in the level of intracellular calcium ions and chemotaxis.
SDF-1-beta(3-72) and SDF-1-alpha(3-67) show a reduced chemotactic activity. Binding to cell surface proteoglycans
seems to inhibit formation of SDF-1-alpha(3-67) and thus to preserve activity on local sites. Acts as a positive
regulator of monocyte migration and a negative regulator of monocyte adhesion via the Lyn kinase. Stimulates migration
of monocytes through its receptor, CXCR4, and decreases monocyte adherence to surfaces coated with ICAM-1, a ligand
for beta-2 integrins. SDF1A/CXCR4 signaling axis inhibits beta-2 integrin LFA-1 mediated adhesion of monocytes to
ICAM-1 through Lyn kinase

Gene Wiki entry for CXCL12 (Stromal cell-derived factor-1)

(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 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CXCL12 gene promoter:
         NF-kappaB1   CREB   STAT1beta   STAT1alpha   STAT1   deltaCREB   STAT5A   NF-1   NF-kappaB   NRSF form 2   
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for CXCL12

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for CXCL12 


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

Entrez Gene cytogenetic band: 10q11.1   Ensembl cytogenetic band:  10q11.21   HGNC cytogenetic band: 10q11.1

CXCL12 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CXCL12 gene location

GeneLoc gene densities for chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M041391:  view genomic region     (about GC identifiers)

Start:
41,391,949 bp from pter
End:
41,406,899 bp from pter
Size:
14,951 bases
Orientation:
minus strand

1 alternative location:
Chr10- 44,865,613-44,881,941     
RefSeq DNA sequence:
NC_000010.10  NT_033985.7  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: SDF1_HUMAN, P48061 (See protein sequence)
Recommended Name: Stromal cell-derived factor 1 precursor  
Size: 93 amino acids; 10666 Da
Subcellular location: Secreted
Sequence caution: Sequence=CAC10202.1; Type=Erroneous gene model prediction;
PDB structures from and Proteopedia :
1A15 (3D)    1QG7 (3D)    1SDF (3D)    1VMC (3D)    2J7Z (3D)    2K01 (3D)    2K03 (3D)    2K04 (3D)    
2K05 (3D)    2KEC (3D)    2KED (3D)    2KEE (3D)    2NWG (3D)    2SDF (3D)    3GV3 (3D)    3HP3 (3D)    
Secondary accessions: B2R4G0 Q9H554
Alternative splicing: 2 isoforms:  P48061-1   P48061-2   

Explore the universe of human proteins at neXtProt for CXCL12: NX_P48061 

Post-translational modifications:

  • Processed forms SDF-1-beta(3-72) and SDF-1-alpha(3-67) are produced after secretion by proteolytic cleavage of isoforms
  • Beta and Alpha, respectively. The N-terminal processing is probably achieved by DPP4. Isoform Alpha is first cleaved
    at the C-terminus to yield a SDF-1-alpha(1-67) intermediate before being processsed at the N-terminus. The C-terminal
    processing of isoform Alpha is reduced by binding to heparin and, probably, cell surface proteoglycans1


    REFSEQ proteins (4 alternative transcripts): 
    NP_000600.1  NP_001029058.1  NP_001171605.1  NP_954637.1  


    ENSEMBL proteins: 
    ENSP00000363548 ENSP00000379139 ENSP00000379140 ENSP00000339913 ENSP00000379141 ENSP00000363551 


    Human Recombinant Proteins 
    Millipore Purified and/or Recombinant CXCL12 Protein
    Sigma-Aldrich Proteins for CXCL12
    R&D Systems Recombinant & Natural Proteins for CXCL12 (CXCL12/SDF-1, CXCL12/SDF-1 alpha, CXCL12/SDF-1 beta)
    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 (see all 2): CXCL12
    GenScript Custom Purified and Recombinant Proteins Services for CXCL12 
    Novus Biologicals Proteins for CXCL12
    Novus Biologicals Lysate for CXCL12
    Sino Biological Recombinant Protein for CXCL12
    ProSpec Recombinant Protein for CXCL12

    3 Gene Ontology (GO) cellular component terms (GO ID links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576 extracellular region TAS--
    GO:0005615 extracellular space IEA--
    GO:0005886 plasma membrane ----
    About this table

    CXCL12 for ontologies           About GeneDecksing



    Antibodies for CXCL12: 
    Millipore Mono- and Polyclonal Antibodies for the study of CXCL12
    Sigma-Aldrich Antibodies for CXCL12
    R&D Systems Antibodies for CXCL12 (CXCL12/SDF-1, CXCL12/SDF-1 beta)
    Cell Signaling Technology (CST) Antibodies for CXCL12  (SDF-1)
    Browse OriGene Antibodies
    GenScript Custom Superior Antibodies Services for CXCL12 
    Novus Biologicals Antibodies for CXCL12
    Browse antibodies at Epitomics

    Assays for CXCL12: 
    Browse Kits and Assays available from Millipore
    Browse ELISAs at Sigma-Aldrich
    OriGene Custom Immunoassay Development 
    Browse OriGene Fluorogenic Cell Assay Kits 
    R&D Systems Flow Cytometry Kits for CXCL12 (CXCL12/SDF-1, CXCL12/SDF-1 alpha)         (see all)
    GenScript Custom Assay Services for CXCL12 
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs and CLIAs at Uscn 


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    CXCL12 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR001811 Chemokine_IL8
     IPR002473 C-X-C/Interlkn_8

    Graphical View of Domain Structure for InterPro Entry P48061

    ProtoNet protein and cluster: P48061

    UniProtKB/Swiss-Prot: SDF1_HUMAN, P48061
    Similarity: Belongs to the intercrine alpha (chemokine CxC) family


    (According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
    About This Section

    UniProtKB/Swiss-Prot: SDF1_HUMAN, P48061
    Function: Chemoattractant active on T-lymphocytes, monocytes, but not neutrophils. Activates the C-X-C chemokine
    receptor CXCR4 to induce a rapid and transient rise in the level of intracellular calcium ions and chemotaxis.
    SDF-1-beta(3-72) and SDF-1-alpha(3-67) show a reduced chemotactic activity. Binding to cell surface proteoglycans
    seems to inhibit formation of SDF-1-alpha(3-67) and thus to preserve activity on local sites. Acts as a positive
    regulator of monocyte migration and a negative regulator of monocyte adhesion via the Lyn kinase. Stimulates migration
    of monocytes through its receptor, CXCR4, and decreases monocyte adherence to surfaces coated with ICAM-1, a ligand
    for beta-2 integrins. SDF1A/CXCR4 signaling axis inhibits beta-2 integrin LFA-1 mediated adhesion of monocytes to
    ICAM-1 through Lyn kinase

    Inhib.
    RNA:
        
    Browse for Gene Knock-down Tools from Millipore
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich esiRNA and siRNA for CXCL12
    Sigma-Aldrich shRNA Panels and shRNA for CXCL12
    OriGene 29mer shRNA kits in GFP-retroviral vector (see all 4): CXCL12
    OriGene shRNA RFP (see all 4): CXCL12
    OriGene basic RS shRNA (see all 4): CXCL12
    OriGene siRNA (see all 4): CXCL12
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of CXCL12 
    miRNA:Sigma-Aldrich microRNA Mimics for CXCL12
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of CXCL12 
    8/21 SABiosciences Assays for microRNAs that regulate CXCL12 (see all 21):
    hsa-miR-623 hsa-miR-448 hsa-miR-520e hsa-miR-200a hsa-miR-221 hsa-miR-519a hsa-miR-141 hsa-miR-144

    Gene
    Editing:
    Browse CompoZr Knockout ZFN at Sigma-Aldrich 

    Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
    Browse iPSC Reprogramming Factors at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector (see all 4): CXCL12
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 4): CXCL12
    OriGene untagged cDNA clones in CMV expression vector (see all 3): CXCL12
    OriGene 3'-UTR clone (see all 3): CXCL12 
    Browse MicroRNA Expression Plasmids 
    GenScript Custom cDNA clone Services for CXCL12 
    Sino Biological Human cDNA Clone for CXCL12

    Cell
    Lines:
      
    GenScript Custom overexpressing Cell Line Services for CXCL12 

    4 Gene Ontology (GO) molecular function terms (GO ID links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004871 signal transducer activity TAS10802710
    GO:0005102 receptor binding TAS10438529
    GO:0008009 chemokine activity IEA--
    GO:0008083 growth factor activity IEA--
    About this table

    CXCL12 for ontologies           About GeneDecksing

    Animal Models: 9 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Cxcl12):

    cardiovascular systemhematopoietic systemimmune systemlethality-prenatal/perinatallife span-post-weaning/aging
    liver/biliary systemnervous systemno phenotypic analysisreproductive system

    CXCL12 for phenotypes           About GeneDecksing


    (Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
    About This Section


    CXCL12 for pathways           About GeneDecksing

    4 Millipore Pathways for CXCL12
        Chemotaxis CXCR4 signaling pathway
    Cell adhesion Integrin inside-out signaling
    Cytoskeleton remodeling Reverse signaling by ephrin B
    Apoptosis and survival Lymphotoxin-beta receptor signaling

    5/7 Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Pathways for  CXCL12 (see all 7)
        Ephrin Receptor Signaling
    Chemokine Signaling
    Role of Macrophages, Fibroblasts and Endothelial Cells in Rheumatoid Arthritis
    CXCR4 Signaling
    Atherosclerosis Signaling

    5 Kegg Pathways  (Kegg details for CXCL12):
        hsa04060 Cytokine-cytokine receptor interaction
    hsa04062 Chemokine signaling pathway
    hsa04360 Axon guidance
    hsa04670 Leukocyte transendothelial migration
    hsa04672 Intestinal immune network for IgA production

        SABiosciences Pathway-Focused PCR Arrays including CXCL12 (see all 10): PAHS-011A PAHS-022A  

        Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Molecular Interaction Network for CXCL12
        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for CXCL12

    5/71 Interacting proteins for CXCL12 (ENSP000003635483 P480612) via UniProtKB, MINT, and/or STRING (see all 71)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DPP4P274872STRING: ENSP00000353731 MINT-6491448 MINT-6491442
    DPP8Q6V1X12MINT-6491388 MINT-6491407
    CXCR4ENSP000002413933STRING: ENSP00000241393
    ADAENSP000003619653STRING: ENSP00000361965
    ADRB2ENSP000003053723STRING: ENSP00000305372
    About this table

    5/35 Gene Ontology (GO) biological process terms (GO ID links to tree view) (see all 35):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001569 patterning of blood vessels ----
    GO:0001666 response to hypoxia ----
    GO:0001667 ameboidal cell migration ----
    GO:0001764 neuron migration ----
    GO:0001938 positive regulation of endothelial cell proliferation ----
    About this table

    CXCL12 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    CXCL12 for compounds           About GeneDecksing

    Browse Small Molecules at Sigma-Aldrich
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for CXCL12
    10/88 Novoseek chemical compound relationships for CXCL12 gene (see all 88)
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    sdf 1 95 255 10413364 (10), 15808852 (9), 18698020 (9), 8751377 (8) (see all 82)
    rantes 84.6 174 16011532 (11), 16343773 (4), 11064099 (4), 14717979 (3) (see all 99)
    bicyclam 79.1 10 9733901 (1), 16675573 (1), 17959712 (1), 12677165 (1) (see all 8)
    plerixafor 77.1 5 19834627 (1), 18940680 (1), 18691106 (1), 18847313 (1) (see all 5)
    teck 74.5 9 19362302 (1), 9886241 (1), 10449163 (1), 18501472 (1) (see all 6)
    vegf 69.4 316 19374809 (9), 19410951 (8), 12384916 (8), 18031819 (7) (see all 99)
    ccl3 68.9 20 20003942 (2), 15542651 (2), 16969502 (2), 12534281 (1) (see all 15)
    grobeta 67.4 1 19589793 (1)
    matrigel 55.6 24 15059909 (2), 15582259 (2), 11063876 (2), 16278822 (2) (see all 17)
    ly294002 54.6 11 16884765 (2), 12414810 (2), 20351091 (1), 18384792 (1) (see all 8)
    About this table



    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Millipore,
    siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
    Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
    About This Section

    Inhib.
    RNA:
         
    Browse for Gene Knock-down Tools from Millipore
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich esiRNA and siRNA for CXCL12
    Sigma-Aldrich shRNA Panels and shRNA for CXCL12
    OriGene 29mer shRNA kits in GFP-retroviral vector (see all 4): CXCL12
    OriGene shRNA RFP (see all 4): CXCL12
    OriGene basic RS shRNA (see all 4): CXCL12
    OriGene siRNA (see all 4): CXCL12
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of CXCL12 
    miRNA: Sigma-Aldrich microRNA Mimics for CXCL12
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of CXCL12 
    8/21 SABiosciences Assays for microRNAs that regulate CXCL12 (see all 21):
    hsa-miR-623 hsa-miR-448 hsa-miR-520e hsa-miR-200a hsa-miR-221 hsa-miR-519a hsa-miR-141 hsa-miR-144
    Clones: Browse FLAG tag genes at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector (see all 4): CXCL12
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 4): CXCL12
    OriGene untagged cDNA clones in CMV expression vector (see all 3): CXCL12
    OriGene 3'-UTR Clone (see all 3): CXCL12 
    Browse OriGene MicroRNA Expression Plasmids 
    GenScript Custom cDNA clone Services for CXCL12 
    Primers: OriGene genome-wide validated SYBR primer pairs: CXCL12
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for CXCL12: PPH00528A

    REFSEQ mRNAs for CXCL12 gene (4 alternative transcripts): 

    NM_000609.5  NM_001033886.2  NM_001178134.1  NM_199168.3  

    Additional cDNA sequence: 

    AJ227905.1 AK090482.1 AK124641.1 AK292628.1 AK311814.1 AL713778.1 AY644456.1 AY874118.1 
    BC031072.1 BC039893.1 CR450283.1 CR615181.1 DQ345517.1 DQ345518.1 DQ345519.1 DQ345520.1 
    L36033.1 L36034.1 

    16 DOTS entries:

    DT.75167133  DT.95274185  DT.447215  DT.121284954  DT.121284964  DT.65284715  DT.100788017  DT.91803447 
    DT.92421328  DT.100788018  DT.100788016  DT.100810713  DT.91749901  DT.95274178  DT.95306903  DT.87016801 

    24/323 AceView cDNA sequences (see all 323):

    AI277200 BQ722219 CA431576 AI857805 BI711077 CA426157 CR615181 BU617499 
    AA348089 BQ708000 AA978287 CA447400 AI802430 CA426017 NM_000609 F02492 
    CA413305 BU618117 BU735886 AU119967 AU118491 C02038 AI655374 AI539300 

    highest scoring ESTs for CXCL12:

    L36033 AI015208 AI655759 AL538307 AW583054 BC039893 BM545450 BQ716869 BQ878801 BQ878939 

    Unigene Cluster for CXCL12:

    Chemokine (C-X-C motif) ligand 12
    Hs.522891  [show with all ESTs]
    Unigene Representative Sequence: AK090482


    GeneLoc Exon Structure

    8 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000374426(uc001jbh.2) ENST00000488591 ENST00000395793 ENST00000496375
    ENST00000395794 ENST00000343575(uc001jbi.2) ENST00000395795 ENST00000374429(uc001jbf.2)


    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Primers from OriGene and/or SABiosciences )
    About This Section

    CXCL12 expression in normal and diseased human tissues

    1  / 2  / 3

    6 probe-sets matching CXCL12 gene

    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    33834_at2, 3 U95-A 1 1.00 1.00 0.95 1.06 L36033 1.00 0.90 0.95 1
    32666_at2, 3 U95-A 1 1.00 1.00 0.95 0.94 U19495 0.80 1.00 0.91 1
    209687_at2, 3 U133-A 1 1.00 1.00 -- -- U19495 0.80 1.00 0.91 1
    203666_at2, 3 U133-A 1 1.00 1.00 -- -- NM_000609 0.60 1.00 0.82 1
    209687_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    203666_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    About this table

    CXCL12 for expression           About GeneDecksing

    Data from Genenote  (Publications) and GNF BioGPS
        About these images
    CXCL12 gene expression
    CXCL12 gene electronic northern expression
    CXCL12 gene sage expression
    About these images

    CGAP SAGE TAG: --

    SOURCE GeneReport for Unigene cluster: Hs.522891
    Primers: OriGene genome-wide validated SYBR primer pairs: CXCL12
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for CXCL12: PPH00528A
        SABiosciences Expression via Pathway-Focused PCR Arrays including CXCL12 (see all 10): PAHS-011A PAHS-022A  


    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section

    Orthologs for CXCL12 gene from 4 species
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    rat
    (Rattus norvegicus)
    Cxcl121   -- chemokine (C-X-C motif) ligand 12 (stromal cell-derived more 91.6(n)
    93.28(a)
    24772  NM_001033883.1  NP_001029055.1 
    mouse
    (Mus musculus)
    Cxcl121 , 5 6 (54.81 cM)5
    chemokine (C-X-C motif) ligand 121, 5 92.72(n)1
    94.96(a)1
    203151  NM_001012477.11  NP_001012495.11 
     AA3871965  AI1740285  (see all 27)
    chicken
    (Gallus gallus)
    CXCL121   -- chemokine (C-X-C motif) ligand 12 (stromal cell-derived more 75.28(n)
    73.03(a)
    395180  NM_204510.1  NP_989841.1 
    African clawed frog
    (Xenopus laevis)
    MGC687702   -- hypothetical protein MGC68770 72.98(n)  AJ278857.1 
    About this table        Species with no ortholog for CXCL12

    ENSEMBL Gene Tree for CXCL12 (if available)

    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section
      --

    (SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
    About This Section

    10/237 NCBI SNPs in CXCL12 are shown (see all 237)
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidChr 10 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ----------
    rs25221,2
    C,F,A,44867304(+) AACCCA/GCAAGT 2 -- ut3120Minor allele frequency- G:0.13EU NA NS EA 1692
    rs77771,2
    --44865737(-) CGCAGC/TGTGCT 2 -- ut31 ese31Minor allele frequency- T:0.00MN 184
    rs103471,2
    --44865752(-) AGGNCA/GATTCC 2 -- ut31 ese31Minor allele frequency- G:0.00MN 184
    rs1690971,2
    C,F,A,H,44868083(+) TTTGCG/AGGGCC 2 -- ut3126Minor allele frequency- A:0.08MN NS EA NA WA 1668
    rs1974521,2
    C,F,A,44870240(+) GGATCC/TGGGTG 1 -- int118Minor allele frequency- T:0.13NS EA NA WA 1370
    rs2660851,2
    C,F,A,44874253(+) AACACT/CCATCT 4 -- int111Minor allele frequency- C:0.47EA NS NA WA 1846
    rs2660861,2
    C,F,H,44871833(+) CCCTGC/TTCTCA 2 -- int117Minor allele frequency- T:0.05NA NS EA WA 702
    rs2660871,2
    C,F,A,44871062(+) AGGGCG/AGGCTG 2 -- int1 ng3110Minor allele frequency- A:0.37NS EA NA WA 568
    rs2660881,2
    C,F,44870015(+) AGCAGC/TGGGAA 1 -- int118Minor allele frequency- T:0.14NS EA NA WA 1268
    rs2660891,2
    C,F,A,H,44869427(+) TCTTCG/ACTCTT 1 -- int119Minor allele frequency- A:0.20NS EA NA WA 1018
    About this table

    HapMap Linkage Disequilibrium images for CXCL12 (up to first 250kb)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for CXCL12: --

    QIAGEN SeqTarget long-range PCR primers for resequencing CXCL12 

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    CXCL12 for disorders           About GeneDecksing

    OMIM: 600835   disorders: 609423  

    10/94 Novoseek disease relationships for CXCL12 gene (see all 94)

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    whim syndrome 80.4 2 15781337 (1), 18556651 (1)
    neovascularization 66.6 42 19595531 (3), 19215683 (3), 12628955 (2), 12680875 (1) (see all 24)
    immunodeficiency 65.3 48 12232832 (2), 9108384 (1), 10413364 (1), 16306611 (1) (see all 43)
    metastasis 62.8 252 18558091 (5), 18176915 (5), 20032431 (4), 18223219 (4) (see all 99)
    tumors 51 295 19350687 (6), 17355795 (5), 16982747 (4), 18558091 (4) (see all 99)
    hiv infections 49.5 39 20104779 (3), 12215924 (2), 9108384 (1), 10413364 (1) (see all 27)
    cancer 47.6 125 20032431 (4), 14749473 (4), 15854291 (3), 19825996 (2) (see all 81)
    inflammation 42.1 34 11095335 (3), 18383856 (2), 12444153 (1), 15339043 (1) (see all 28)
    myeloma 37.6 22 16278822 (4), 15023543 (3), 11154207 (3), 14688392 (2) (see all 11)
    hypogammaglobulinemia 37.1 1 18556651 (1)
    About this table

    Human Gene Mutation Database (HGMD): CXCL12
    Genetic Association Database (GAD): CXCL12
    Human Genome Epidemiology (HuGE) Navigator: CXCL12 (138 documents)

    Export disorders and mutations for CXCL12 gene to outside databases

    (Possibly Related Articles in Doctor's Guide)
    About This Section

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6UniProtKB/TrEMBL, and/or 7Novoseek)
    About This Section

    10/1428 PubMed articles for CXCL12 gene, integrated from 7 sources (see all 1428):
    (articles sorted by number of sources associating them with CXCL12)
    1. Structure and chromosomal localization of the human stromal cell- derived factor 1 (SDF1) gene. (PubMed id 7490086)1, 2, 3, 7 Shirozu M....Honjo T. (1995)
    2. Role of CCR5, CCR2 and SDF-1 gene polymorphisms in a population of HIV-1 infected individuals. (PubMed id 11693435)1, 4, 7 Mazzucchelli R....Balotta C. (2001)
    3. Solution structure and basis for functional activity of stromal cell- derived factor-1; dissociation of CXCR4 activation from binding and inhibition of HIV-1. (PubMed id 9384579)1, 2, 7 Crump M.P....Clark-Lewis I. (1997)
    4. Stromal cell-derived factor-1 (SDF-1) gene and susceptibility of Iranian patients with lung cancer. (PubMed id 15955592)1, 4, 7 Razmkhah M....Ghaderi A. (2005)
    5. Haplotype analysis of the SDF-1 (CXCL12) gene in a longitudinal HIV-1/AIDS cohort study. (PubMed id 16177829)1, 4, 7 Modi W.S....Winkler C. (2005)
    6. Risk for HIV-1 infection associated with a common CXCL12 (SDF1) polymorphism and CXCR4 variation in an African population. (PubMed id 16284526)1, 4, 7 Petersen D.C....Hayes V.M. (2005)
    7. Differential processing of stromal-derived factor-1alpha and beta explains functional diversity. (PubMed id 14525775)1, 2, 7 De La Luz Sierra M.... Tosato G. (2004)
    8. The impact of polymorphisms in chemokine and chemokine receptors on outcomes in liver transplantation. (PubMed id 12201365)1, 4, 7 Schroppel B....Murphy B. (2002)
    9. Associations of CCR5, CCR2, and stromal cell-derived factor 1 genotypes with human immunodeficiency virus disease progression in patients receiving nucleoside therapy. (PubMed id 11709782)1, 4, 7 Lathey J.L....Katzenstein D.A. (2001)
    10. Distribution of HIV/AIDS protective SDF1, CCR5 and CCR2 gene variants within Cretan population. (PubMed id 16286055)1, 4, 7 Apostolakis S....Spandidos D.A. (2005)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 6387 HGNC: 10672 AceView: CXCL12 Ensembl:ENSG00000107562 euGenes: HUgn6387
    ECgene: CXCL12 Kegg: 6387 H-InvDB: CXCL12

    (According to HUGE)
    About This Section
      --

    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    ATLAS Chromosomes in Cancer entry for CXCL12 Genetics and Cytogenetics in Oncology and Haematology
    Wikipedia http://en.wikipedia.org/wiki/SDF-1_%28biology%29
    SeattleSNPshttp://pga.gs.washington.edu/data/cxcl12/

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from XenneX, Inc.)
    About This Section
    Patent Information for CXCL12 gene:
    Search GeneIP for patents involving CXCL12

    Licensable Technologies for CXCL12 gene:
     Weizmann Institute:Enrichment of Repopulating Stem Cells For Clinical Protocols
    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
    Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
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     Browse ELISAs and CLIAs at Uscn
           

    GeneCards Homepage - Last full update: 30 Dec 2010 - Incremental updates: 10 Jan 2011 , 10 Jan 2011

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