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CDX2 Gene

protein-coding   GIFtS: 65
GCID: GC13M028536

Caudal Type Homeobox 2

(Previous name: caudal type homeo box transcription factor 2)
(Previous symbol: CDX3)
  See CDX2-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)
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Aliases
Caudal Type Homeobox 21 2     CDX-32 3
CDX31 2 3 5     Caudal Type Homeobox Transcription Factor 22
Caudal Type Homeo Box Transcription Factor 21 2     Homeobox Protein CDX-22
Caudal-Type Homeobox Protein 22 3     

External Ids:    HGNC: 18061   Entrez Gene: 10452   Ensembl: ENSG000001655567   OMIM: 6002975   UniProtKB: Q996263   

Export aliases for CDX2 gene to outside databases

Previous GC identifers: GC13M026516 GC13M022516 GC13M027466 GC13M026334 GC13M027434 GC13M009356


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CDX2 Gene:
This gene is a member of the caudal-related homeobox transcription factor gene family. The encoded protein is a
major regulator of intestine-specific genes involved in cell growth an differentiation. This protein also plays a
role in early embryonic development of the intestinal tract. Aberrant expression of this gene is associated with
intestinal inflammation and tumorigenesis. (provided by RefSeq, Jan 2012)

GeneCards Summary for CDX2 Gene:
CDX2 (caudal type homeobox 2) is a protein-coding gene. Diseases associated with CDX2 include cervical adenocarcinoma, and ampulla of vater adenocarcinoma. GO annotations related to this gene include transcription regulatory region sequence-specific DNA binding and sequence-specific DNA binding transcription factor activity. An important paralog of this gene is CDX1.

UniProtKB/Swiss-Prot: CDX2_HUMAN, Q99626
Function: Involved in the transcriptional regulation of multiple genes expressed in the intestinal epithelium.
Important in broad range of functions from early differentiation to maintenance of the intestinal epithelial
lining of both the small and large intestine

Gene Wiki entry for CDX2 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_000013.10  NC_018924.2  NT_024524.15  
Regulatory elements:
   Regulatory transcription factor binding sites in the CDX2 gene promoter:
         COUP-TF1   c-Fos   COUP-TF   AP-1   ATF-2   COUP   c-Jun   HNF-4alpha1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCDX2 promoter sequence
   Search Chromatin IP Primers for CDX2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CDX2


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

Entrez Gene cytogenetic band: 13q12.3   Ensembl cytogenetic band:  13q12.2   HGNC cytogenetic band: 13q12.2

CDX2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CDX2 gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13M028536:  view genomic region     (about GC identifiers)

Start:
28,536,274 bp from pter      End:
28,545,276 bp from pter
Size:
9,003 bases      Orientation:
minus strand

(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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UniProtKB/Swiss-Prot: CDX2_HUMAN, Q99626 (See protein sequence)
Recommended Name: Homeobox protein CDX-2  
Size: 313 amino acids; 33520 Da
Secondary accessions: O00503 Q5VTU7 Q969L8 Q9UD92

Explore the universe of human proteins at neXtProt for CDX2: NX_Q99626

Explore proteomics data for CDX2 at MOPED

Post-translational modifications: 

  • Phosphorylation of Ser-60 mediates the transactivation capacity (By similarity)1
  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CDX2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001256.3  
    ENSEMBL proteins: 
     ENSP00000370408  
    Reactome Protein details: Q99626

    CDX2 Human Recombinant Protein Products:

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    OriGene Protein Over-expression Lysate for CDX2
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    Novus Biologicals CDX2 Proteins
    Novus Biologicals CDX2 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for CDX2

     
    Search eBioscience for Proteins for CDX2 

     
    antibodies-online proteins for CDX2 (4 products) 

     
    antibodies-online peptides for CDX2

    CDX2 Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of CDX2
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    Novus Biologicals CDX2 Antibodies
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    antibodies-online antibodies for CDX2 (141 products) 

    CDX2 Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    GenScript Custom Assay Services for CDX2
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for CDX2
    Cloud-Clone Corp. CLIAs for CDX2
    Search eBioscience for ELISAs for CDX2 
    antibodies-online kits for CDX2 (25 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    HOXL: Homeoboxes / ANTP class : HOXL subclass

    Selected InterPro protein domains (see all 6):
     IPR020479 Homeobox_metazoa
     IPR000047 HTH_motif
     IPR017970 Homeobox_CS
     IPR001356 Homeobox_dom
     IPR009057 Homeodomain-like

    Graphical View of Domain Structure for InterPro Entry Q99626

    ProtoNet protein and cluster: Q99626

    2 Blocks protein domains:
    IPB000047 Lambda and other repressor helix-turn-helix signature
    IPB006820 Caudal-like activation region


    UniProtKB/Swiss-Prot: CDX2_HUMAN, Q99626
    Similarity: Belongs to the Caudal homeobox family
    Similarity: Contains 1 homeobox DNA-binding domain


    Find genes that share domains with CDX2           About GenesLikeMe


    (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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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CDX2_HUMAN, Q99626
    Function: Involved in the transcriptional regulation of multiple genes expressed in the intestinal epithelium.
    Important in broad range of functions from early differentiation to maintenance of the intestinal epithelial
    lining of both the small and large intestine

         Genatlas biochemistry entry for CDX2:
    Drosophila caudal family member 2,murine Cdx2 homolog,homeo domain encoding gene,expressed in the
    intestine,involved in the proliferation and differentiation of intestinal epithelial cells,mutated in colorectal
    carcinoma with normal APC/CTNNB signaling pathway,fused with ETV6 in acute myeloid leukemia,

         Gene Ontology (GO): Selected molecular function terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000976transcription regulatory region sequence-specific DNA binding IEA--
    GO:0003677DNA binding ----
    GO:0003690double-stranded DNA binding IEA--
    GO:0003700sequence-specific DNA binding transcription factor activity IEA--
    GO:0003714transcription corepressor activity IEA--
         
    Find genes that share ontologies with CDX2           About GenesLikeMe


    Phenotypes:
         5 GenomeRNAi human phenotypes for CDX2:
     Decreased NANOG protein expres  Decreased OCT4 protein express  Decreased POU5F1-GFP protein e  Decreased nuclei size in G2M 
     Increased gamma-H2AX phosphory 

         13 MGI mutant phenotypes (inferred from 9 alleles(MGI details for Cdx2):
     cardiovascular system  cellular  digestive/alimentary  embryogenesis  endocrine/exocrine gland 
     growth/size/body  homeostasis/metabolism  limbs/digits/tail  mortality/aging  normal 
     reproductive system  skeleton  tumorigenesis 

    Find genes that share phenotypes with CDX2           About GenesLikeMe

    Animal Models:
         MGI mouse knock-outs for CDX2: Cdx2tm1Fbe Cdx2tm1.2Aral Cdx2tm2.1Fbe

       genOway: Develop your customized and physiologically relevant rodent model for CDX2

    Transcription Factor Targeting: 
    Targeting motifs: HOMER Transcription Factor Regulatory Elements motif viewer 
                                          Consensus sequence:  GTCATAAAAN 

    miRNA
    Products:
        
    miRTarBase miRNAs that target CDX2:
    hsa-mir-484 (MIRT042133), hsa-mir-335-5p (MIRT018670), hsa-mir-9-5p (MIRT005783), hsa-mir-181a-5p (MIRT000245), hsa-mir-204-5p (MIRT005784), hsa-mir-181c-5p (MIRT000235), hsa-mir-181b-5p (MIRT000240)

    Block miRNA regulation of human, mouse, rat CDX2 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CDX2 (see all 19):
    hsa-miR-3128 hsa-miR-875-3p hsa-miR-181c hsa-miR-4299 hsa-miR-888* hsa-miR-9 hsa-miR-542-3p hsa-miR-24
    SwitchGear 3'UTR luciferase reporter plasmidCDX2 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for CDX2
    Predesigned siRNA for gene silencing in human, mouse, rat CDX2

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for CDX2

    Clone
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    OriGene clones in human, mouse for CDX2 (see all 6)
    OriGene ORF clones in mouse, rat for CDX2
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: CDX2 (NM_001265)
    Sino Biological Human cDNA Clone for CDX2
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CDX2
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CDX2
    Addgene plasmids for CDX2 

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for CDX2 
    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDX2

    Flow Cytometry
    Products:
       

     
    eBioscience FlowRNA Probe Sets ( VA1-10441 VA4-11270 VA6-12963) for CDX2 


    (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 UniProtKB/Swiss-Prot
    CDX2_HUMAN, Q99626: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytoskeleton2
    extracellular1
    plasma membrane1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000794condensed nuclear chromosome IEA--
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0017053transcriptional repressor complex IEA--
    GO:0043234protein complex ----

    Find genes that share ontologies with CDX2           About GenesLikeMe


    (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 CDX2 About   (see all 9)  
    See pathways by source

    SuperPathContained pathways About
    1Incretin Synthesis, Secretion, and Inactivation
    Incretin Synthesis, Secretion, and Inactivation0.88
    Synthesis, Secretion, and Inactivation of Glucagon-like Peptide-1 (GLP-1)0.88
    2Cell adhesion Integrin mediated cell adhesion and migration
    Cell adhesion Tight junctions0.33
    3Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein
    Metabolism of proteins0.30
    4Peptide hormone metabolism
    Peptide hormone metabolism0.30
    5Wnt / Hedgehog / Notch
    Wnt / Hedgehog / Notch


    Find genes that share SuperPaths with CDX2           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    2 Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for CDX2
        Transcriptional Regulatory Network in Embryonic Stem Cell
    Oct4 in Mammalian ESC Pluripotency

    1 Cell Signaling Technology (CST) Pathway for CDX2
        Wnt / Hedgehog / Notch

    2 GeneGo (Thomson Reuters) Pathways for CDX2
        Transcription Role of VDR in regulation of genes involved in osteoporosis
    Cell adhesion Tight junctions


    1 Reactome Pathway for CDX2
        Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1)


        Pathway & Disease-focused RT2 Profiler PCR Arrays including CDX2: 
              Stem Cell Transcription Factors in human mouse rat
              Stem Cell Signaling in human mouse rat
              Embryonic Stem Cells in human mouse rat
              Homeobox (HOX) Genes in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for CDX2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for CDX2 (Q996263 ENSP000003704084) via UniProtKB, MINT, STRING, and/or I2D (see all 53)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CREBBPQ927933, ENSP000002623674I2D: score=3 STRING: ENSP00000262367
    ACAT2Q9BWD13, ENSP000003560154I2D: score=2 STRING: ENSP00000356015
    CDK2P249413, ENSP000002669704I2D: score=2 STRING: ENSP00000266970
    GSK3BP498413, ENSP000003248064I2D: score=2 STRING: ENSP00000324806
    MAPK1P284823, ENSP000002158324I2D: score=2 STRING: ENSP00000215832
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 20):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IDA15677472
    GO:0001568blood vessel development IEA--
    GO:0001824blastocyst development ----
    GO:0001829trophectodermal cell differentiation IEA--
    GO:0001890placenta development ----

    Find genes that share ontologies with CDX2           About GenesLikeMe



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

    Browse Tocris compounds for CDX2

    Selected Novoseek inferred chemical compound relationships for CDX2 gene (see all 15)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    vitamin d 51.9 11 16883525 (2), 16362455 (2), 16604479 (1), 17895434 (1) (see all 8)
    5-aza-2'deoxycytidine 40.2 4 12947088 (1), 15498792 (1), 16990345 (1)
    apai 40.2 4 16908916 (2), 17895434 (1), 17164384 (1)
    deoxycholic acid 39.1 17 17852856 (3), 16618413 (3), 17576890 (3), 18854960 (2) (see all 5)
    butyrate 20.7 3 11889074 (1), 15327990 (1), 18575574 (1)
    estrogen 11 10 15737028 (1), 18580680 (1), 18670351 (1), 16604479 (1) (see all 10)
    paraffin 6.15 4 14577202 (1), 18500171 (1), 18992917 (1)
    steroid 5.17 2 11841999 (1), 15306932 (1)
    oligonucleotide 1.76 2 13679455 (1), 11450701 (1)
    thymidine 0 1 11450701 (1)



    Find genes that share compounds with CDX2           About GenesLikeMe



    (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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    REFSEQ mRNAs for CDX2 gene: 
    NM_001265.4  

    Unigene Cluster for CDX2:

    Caudal type homeobox 2
    Hs.174249  [show with all ESTs]
    Unigene Representative Sequence: NM_001265
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000381020(uc001urv.3) ENST00000548877
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate CDX2 (see all 19):
    hsa-miR-3128 hsa-miR-875-3p hsa-miR-181c hsa-miR-4299 hsa-miR-888* hsa-miR-9 hsa-miR-542-3p hsa-miR-24
    SwitchGear 3'UTR luciferase reporter plasmidCDX2 3' UTR sequence
    Inhib. RNA
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    GenScript: all cDNA clones in your preferred vector: CDX2 (NM_001265)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CDX2
    Addgene plasmids for CDX2 
    Primer
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    OriGene qPCR primer pairs and template standards for CDX2
    OriGene qSTAR qPCR primer pairs in human, mouse for CDX2
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CDX2
      QuantiTect SYBR Green Assays in human, mouse, rat CDX2
      QuantiFast Probe-based Assays in human, mouse, rat CDX2
    Flow Cytometry
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    eBioscience FlowRNA Probe Sets ( VA1-10441 VA4-11270 VA6-12963) for CDX2 

    Additional mRNA sequence: 

    BC014461.1 U51096.1 Y13709.1 

    1 DOTS entry:

    DT.105631 

    Selected AceView cDNA sequences (see all 35):

    AW778824 AI285316 AI346095 BF507496 T25117 BQ083211 BC014461 BM752584 
    BG470190 AW452495 BM738456 BM764919 AW450210 BF513167 AI625985 AI732651 
    NM_001265 AI655099 AA151178 Y13709 BM773344 U51096 CB142655 BG824609 

    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™, 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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    CDX2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GGGGGAGAAG
    CDX2 Expression
    About this image


    CDX2 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 13) fully expand
     
     Trophoblast (Extraembryonic Tissues)    fully expand to see all 11 entries
             Trophoblast Cells Trophoblast
             Extraembryonic Ectoderm
             Trophoblast-like cells
     
     Chorion (Extraembryonic Tissues)
             Chorionic Ectoderm Cells Chorion Bilayer
     
     Placenta (Extraembryonic Tissues)    fully expand to see all 3 entries
             Chorionic Ectoderm Cells Chorion Bilayer
     
     Zygote (Early Embryonic Tissues)    fully expand to see all 6 entries
             2-Cell Embryo Zygote
     
     Inner Cell Mass (Early Embryonic Tissues)    fully expand to see all 7 entries
             Inner Cell Mass Cells Inner Cell Mass
    CDX2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CDX2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.174249
        Pathway & Disease-focused RT2 Profiler PCR Arrays including CDX2: 
              Stem Cell Transcription Factors in human mouse rat
              Stem Cell Signaling in human mouse rat
              Embryonic Stem Cells in human mouse rat
              Homeobox (HOX) Genes in human mouse rat

    Primer
    Products:
    OriGene qPCR primer pairs and template standards for CDX2
    OriGene qSTAR qPCR primer pairs in human, mouse for CDX2
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    QuantiTect SYBR Green Assays in human, mouse, rat CDX2
    QuantiFast Probe-based Assays in human, mouse, rat CDX2
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDX2

    (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

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    This gene was present in the common ancestor of animals.

    Orthologs for CDX2 gene from Selected species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cdx21 , 5 caudal type homeobox 21, 5 87.03(n)1
    91.64(a)1
      5 (86.86 cM)5
    125911  NM_007673.31  NP_031699.21 
     1473008055 
    chicken
    (Gallus gallus)
    Aves CDX21 caudal type homeobox 2 79.44(n)
    75.83(a)
      374205  NM_204311.1  NP_989642.1 
    lizard
    (Anolis carolinensis)
    Reptilia CDX26
    caudal type homeobox 2
    77(a)
    1 ↔ 1
    GL343306.1(1548458-1559581)
    African clawed frog
    (Xenopus laevis)
    Amphibia xCAD22 xCAD2 protein 74.54(n)    M63875.1 
    zebrafish
    (Danio rerio)
    Actinopterygii NM_131109.12   -- 80.1(n)   30330  NM_131109.1 
    worm
    (Caenorhabditis elegans)
    Secernentea pal-16
    Protein PAL-1, isoform b (pal-1) mRNA, complete cd...
    21(a)
    1 → many
    III(4804708-4808709) WBGene00003912


    ENSEMBL Gene Tree for CDX2 (if available)
    TreeFam Gene Tree for CDX2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CDX2 gene
    CDX12  CDX42  
    2 SIMAP similar genes for CDX2 using alignment to 1 protein entry:     CDX2_HUMAN:
    CDX1    CDX4

    Find genes that share paralogs with CDX2           About GenesLikeMe



    (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 CDX2 (see all 174)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 13 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs790385881,2
    C,F--28535761(+) GCTCAC/TGGAAA 1 -- ds50011Minor allele frequency- T:0.01NA 120
    rs2003207491,2
    --28535826(+) GGGGA-/TTTTTT 1 -- ds50010--------
    rs112918751,2
    C--28535835(+) TTTTT-/AAAAAA 1 -- ds50012Minor allele frequency- A:0.00NA CSA 4
    rs801066651,2
    --28535835(+) TTTTTA/TAAAAA 1 -- ds50010--------
    rs751626851,2
    --28535842(+) AAAAAA/TTTTAA 1 -- ds50010--------
    rs3678462811,2
    C--28536454(+) CAAAC-/CCCCCC 1 -- ut310--------
    rs747924631,2
    F--28536786(+) CTGCCC/TGGAGG 1 -- ut310--------
    rs1485749151,2
    C--28536884(+) CCCTCA/GGCTCT 1 -- ut310--------
    rs24819521,2
    C,F,A,H--28536901(+) AGGTGC/TAGCCT 1 -- ut31 ese322Minor allele frequency- T:0.40NS EA NA CSA WA 2342
    rs3720320161,2
    C--28536970(-) CATTGC/TCTGGA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for CDX2 (28536274 - 28545276 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for CDX2: --
    Human Gene Mutation Database (HGMD): CDX2
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CDX2
    DNA2.0 Custom Variant and Variant Library Synthesis for CDX2

    (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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    OMIM gene information: 600297    OMIM disorders: --

    Selected diseases for CDX2 (see all 31):    
    About MalaCards
    cervical adenocarcinoma    ampulla of vater adenocarcinoma    mucinous adenocarcinoma    adenocarcinoma in situ
    ovarian mucinous adenocarcinoma    bladder adenocarcinoma    intestinal neuroendocrine tumor    chronic cholangitis
    horseshoe kidney    colorectal adenocarcinoma    ovarian mucinous neoplasm    cystic teratoma
    malignant germ cell tumor    gallbladder cancer    pseudomyxoma peritonei    gastritis
    intestinal obstruction    moebius syndrome    atrophic gastritis    inverted papilloma

    6 diseases from the University of Copenhagen DISEASES database for CDX2:
    Carcinoma     Colorectal cancer     Bladder adenocarcinoma     Gastritis
    Adenoma     Stomach cancer

    Find genes that share disorders with CDX2           About GenesLikeMe

    Selected Novoseek inferred disease relationships for CDX2 gene (see all 80)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    metaplasia 83.9 182 17906616 (7), 16996572 (7), 17206949 (5), 19725873 (5) (see all 65)
    adenocarcinoma 77.6 207 15205684 (7), 12604886 (7), 15211476 (6), 15333652 (5) (see all 85)
    carcinoma mucinous 77.4 19 16980943 (3), 15722794 (2), 14577202 (1), 14668551 (1) (see all 12)
    barrett esophagus 75.5 26 15167938 (4), 17576890 (3), 16866857 (2), 14576477 (2) (see all 17)
    adenocarcinoma bladder 70.8 2 15074058 (1), 18789486 (1)
    adenocarcinoma tubular 67.6 2 19102008 (1), 16331267 (1)
    neoplasms glandular 63.7 1 15175880 (1)
    carcinoma 61.9 67 14668551 (3), 18992917 (3), 16191504 (2), 15205684 (2) (see all 40)
    colorectal carcinoma 61.8 21 20198783 (2), 15706431 (2), 12947088 (1), 15087663 (1) (see all 16)
    pseudomyxoma peritonei 61.2 2 16978201 (2)

    Genetic Association Database (GAD): CDX2
    Human Genome Epidemiology (HuGE) Navigator: CDX2 (26 documents)

    Export disorders for CDX2 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)
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    PubMed articles for CDX2 gene, integrated from 10 sources (see all 516):
    (articles sorted by number of sources associating them with CDX2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular cloning, sequencing and expression of the mRNA encoding human Cdx1 and Cdx2 homeobox. Down-regulation of Cdx1 and Cdx2 mRNA expression during colorectal carcinogenesis. (PubMed id 9036867)1, 2, 9 Mallo G.V.... Iovanna J.L. (Int. J. Cancer 1997)
    2. No association between the polymorphisms in CDX2 coding regions and colorectal cancer in Chinese. (PubMed id 19421714)1, 4, 9 Xia X....Lai M. (Mol. Cell. Biochem. 2009)
    3. CDX2 polymorphisms, RNA expression, and risk of colorectal cancer. (PubMed id 15994917)1, 4, 9 Rozek L.S....Gruber S.B. (Cancer Res. 2005)
    4. Cloning and chromosome assignment of the human CDX2 gene. (PubMed id 9459001)1, 2, 9 Drummond F.J.... Edwards Y.H. (Ann. Hum. Genet. 1997)
    5. Physical activity, Cdx-2 genotype, and BMD. (PubMed id 17614034)1, 4 Gentil P....Oliveira R.J. (Int J Sports Med 2007)
    6. 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. (Genome Res. 2004)
    7. The homeobox gene CDX2 in colorectal carcinoma: a genetic analysis. (PubMed id 11161380)1, 2 Sivagnanasundaram S....Edwards Y.H. (Br. J. Cancer 2001)
    8. Localization of the genes encoding two transcription factors, LMX1 and CDX3, regulating insulin gene expression to human chromosomes 1 and 13. (PubMed id 7698771)1, 3 German M.S....Bell G.I. (Genomics 1994)
    9. Silencing of CDX2 expression in colon cancer via a dominant repression pathway. (PubMed id 12947088)1, 9 Hinoi T....Fearon E.R. (J. Biol. Chem. 2003)
    10. CDX2 expression is progressively decreased in human gastric intestinal metaplasia, dysplasia and cancer. (PubMed id 17906616)1, 9 Liu Q....Yeoh K.G. (Mod. Pathol. 2007)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 1045 HGNC: 1806 AceView: CDX2 Ensembl:ENSG00000165556 euGenes: HUgn1045
    ECgene: CDX2 H-InvDB: CDX2

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for CDX2 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for CDX2 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for CDX2 gene:
    Search GeneIP for patents involving CDX2

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



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