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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

CDX2 Gene

protein-coding GIFtS: 64
GCID: GC13M028536

caudal type homeobox 2

(Previous name: caudal type homeo box transcription factor 2 )
(Previous symbol: CDX3)

Explore 98 diseases affiliated with
CDX2 via

MalaCards

our new
Human Malady Compendium

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

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

Entrez Gene summary for CDX2:

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)

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

(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence:

NC_000013.10 NC_018924.1 NT_024524.14

Regulatory elements:

SABiosciences 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 plasmid: CDX2 promoter sequence

Search SABiosciences Chromatin IP Primers for CDX2

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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:	28,535,826 bp from pter	End:	28,545,276 bp from pter
Size:	9,451 bases	Orientation:	minus strand

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

UniProtKB/Swiss-Prot: CDX2_HUMAN, Q99626 (See protein sequence)

Recommended Name: Homeobox protein CDX-2

Size: 313 amino acids; 33520 Da

Subcellular location: Nucleus

Secondary accessions: O00503 Q5VTU7 Q969L8 Q9UD92

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

Post-translational modifications:

Phosphorylation of Ser-60 mediates the transactivation capacity (By similarity)¹

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_Q99626

CDX2 Protein expression data from MOPED and PaxDb: About this image

REFSEQ proteins: NP_001256.3

ENSEMBL proteins:

ENSP00000370408 ENSP00000450721

Human Recombinant Protein Products:

	Browse Purified and Recombinant Proteins at EMD Millipore
	Browse R&D Systems for human recombinant proteins
	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: CDX2 OriGene Custom Protein Services for CDX2
	GenScript Custom Purified and Recombinant Proteins Services for CDX2
	Novus Biologicals CDX2 Proteins Novus Biologicals CDX2 Lysate
	Browse Sino Biological Recombinant Proteins
	Browse ProSpec Recombinant Proteins
	Uscn Proteins for CDX2

Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0000794	condensed nuclear chromosome	IEA	--
GO:0005634	nucleus	--	--
GO:0017053	transcriptional repressor complex	IEA	--
GO:0043234	protein complex	--	--

CDX2 for ontologies About GeneDecksing

CDX2 Antibody Products:

	EMD Millipore Mono- and Polyclonal Antibodies for the study of CDX2
	R&D Systems Antibodies for CDX2
	Cell Signaling Technology (CST) Antibodies for CDX2
	OriGene Antibodies (see all 6): CDX2 OriGene Custom Antibody Services for CDX2
	GenScript Superior Antibodies for CDX2
	Novus Biologicals CDX2 Antibodies
	Abcam antibodies for CDX2
	Uscn Antibodies for CDX2
	ThermoFisher Antibodies for CDX2

Assay Products for CDX2:

	Browse Kits and Assays available from EMD Millipore
	OriGene Custom Immunoassay Development Browse OriGene Fluorogenic Cell Assay Kits
	Browse R&D Systems for biochemical assays
	GenScript Custom Assay Services for CDX2
	Browse Enzo Life Sciences for kits & assays
	Uscn ELISAs and CLIAs for CDX2

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

CDX2 for domains About GeneDecksing

5/6 InterPro domains/families (see all 6):

IPR020479 Homeobox_metazoa

IPR000047 HTH_motif

IPR017970 Homeobox_CS

IPR001356 Homeodomain

IPR009057 Homeodomain-like

Graphical View of Domain Structure for InterPro Entry Q99626

ProtoNet protein and cluster: Q99626

2 Blocks protein families:

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

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section

Function Summary:

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

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,

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

		Browse 3'-UTR reporter clones for miRNA target validation Browse MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CDX2
		8/19 QIAGEN miScript miRNA 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 plasmid: CDX2 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for CDX2 (see all 7) OriGene shRNA RFP: CDX2 OriGene siRNA: CDX2
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat CDX2

Gene Editing
Products:

DNA2.0 Custom Protein Engineering Service for CDX2

Clone Products:		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
		OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CDX2 (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, 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)
		Browse Sino Biological Human cDNA Clones
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for CDX2
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CDX2

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for CDX2
		Search LifeMap BioReagents cell lines for CDX2

In Situ Assay
Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDX2

Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0000976	transcription regulatory region sequence-specific DNA binding	IEA	--
GO:0003700	sequence-specific DNA binding transcription factor activity	IEA	--
GO:0003714	transcription corepressor activity	IEA	--
GO:0005515	protein binding	--	--
GO:0043565	sequence-specific DNA binding	--	--

CDX2 for ontologies About GeneDecksing

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

Animal Models:
Mouse knock-outs for CDX2: Cdx2^tm1Fbe Cdx2^tm1.2Aral Cdx2^tm2.1Fbe
13 MGI mutant phenotypes (inferred from 9 alleles) (MGI details for Cdx2):

cardiovascular system	cellular	digestive/alimentary	embryogenesis	endocrine/exocrine gland
growth/size	homeostasis/metabolism	limbs/digits/tail	mortality/aging	normal
reproductive system	skeleton	tumorigenesis

CDX2 for phenotypes About GeneDecksing

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
About This Section

Unified GeneCards pathways - 5/6 super-pathways (see all 6) About this table

See pathways by source

Super-pathway

contained gene-specific pathways

Transcription_Role of VDR in regulation of genes involved in osteoporosis

Transcription_Role of VDR in regulation of genes involved in osteoporosis

1.00

Transcription Role of VDR in regulation of genes involved in osteoporosis

0.80

Cell adhesion Tight junctions

Cell adhesion Tight junctions

1.00

Cell adhesion_Tight junctions

0.99

Wnt / Hedgehog / Notch

Wnt / Hedgehog / Notch

1.00

Selected targets of Oct-3/4

Selected targets of Oct-3/4

1.00

Oct4 in Mammalian ESC Pluripotency

Oct4 in Mammalian ESC Pluripotency

1.00

Pathway sources
See GeneCards unified pathways
Show all pathways

3 EMD Millipore Pathways for CDX2

	Cell adhesion Tight junctions
	Selected targets of Oct-3/4
	Transcription Role of VDR in regulation of genes involved in osteoporosis

2 Downloadable PowerPoint Slides of QIAGEN 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

CDX2 for pathways About GeneDecksing

Interactions:

SABiosciences Gene Network Central^TM Interacting Genes and Proteins Network for CDX2

STRING Interaction Network Preview (showing 5 interactants - click image to see 21)

5/25 Interacting proteins for CDX2 (Q99626³ ENSP00000370408⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 25)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
CREBBP	Q92793³, ENSP00000262367⁴	I2D: score=3 STRING: ENSP00000262367
ACAT2	Q9BWD1³, ENSP00000356015⁴	I2D: score=2 STRING: ENSP00000356015
CDK2	P24941³, ENSP00000266970⁴	I2D: score=2 STRING: ENSP00000266970
GSK3B	P49841³, ENSP00000324806⁴	I2D: score=2 STRING: ENSP00000324806
MAPK1	P28482³, ENSP00000215832⁴	I2D: score=2 STRING: ENSP00000215832

About this table

Gene Ontology (GO): 5/17 biological process terms (GO ID links to tree view) (see all 17): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	IEA	--
GO:0001568	blood vessel development	IEA	--
GO:0001824	blastocyst development	--	--
GO:0001829	trophectodermal cell differentiation	IEA	--
GO:0001890	placenta development	--	--

CDX2 for ontologies About GeneDecksing

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

CDX2 for compounds About GeneDecksing

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for CDX2
10/15 Novoseek 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)

Search CenterWatch for drugs/clinical trials and news about CDX2

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 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,
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, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

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 Products:		Browse 3'-UTR reporter clones for miRNA target validation Browse OriGene MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CDX2
		8/19 QIAGEN miScript miRNA 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 plasmid: CDX2 3' UTR sequence

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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

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		QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CDX2

Additional cDNA sequence:

BC014461.1 U51096.1 Y13709.1

2 DOTS entries:

DT.105631 DT.91932722

24/35 AceView cDNA sequences (see all 35):

BF507496 AI285316 AW778824 T25117 AI346095 AI655099 AI732651 AW450210

AI625985 BM764919 BM738456 BQ083211 AW452495 AA151178 BC014461 NM_001265

BG470190 BM773344 BF513167 BM752584 Y13709 AI285149 AW375967 AA594130

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

CDX2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GGGGGAGAAG

About this image

CDX2 expression in embryonic tissues and stem cells

Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

10/15 LifeMap In Vivo Development Anatomical Compartments/Cells (see all 15)

Tissue

Anatomical Compartment

Cell

Category (developmental path)

Chorion

Chorion Bilayer

Chorionic Ectoderm Cells

Selective marker (cell-identifying gene)

Extraembryonic Tissues, Placenta

Trophoblast

Extraembryonic Ectoderm

Extraembryonic Ectoderm Cells

Extraembryonic Tissues, Placenta

Trophoblast

Trophoblast Cells

Extraembryonic Tissues

Trophoblast

Trophoblast Cells

Extraembryonic Tissues

Early Embryo (Zygote)

Zygote

2-Cell Embryo

Early Embryo

Early Embryo (Zygote)

Zygote

4-Cell Embryo

Early Embryo

Early Embryo (Zygote)

Zygote

Early Embryo

Inner Cell Mass

Inner Cell Mass Cells

Early Embryo

Placenta

Chorion Frondosum

Primitive Cytotrophoblast Cells

Extraembryonic Tissues, Placenta

Placenta

Chorion Frondosum

Primitive Syncytiotrophoblast Cells

Extraembryonic Tissues, Placenta

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

Stem Cell Differentiation: 8 LifeMap Cells

Name

Category

Extra-embryonic endoderm cells (Fetal Stem / Progenitor Cell)

Extraembryonic Tissues

Trophoblast-like cells (Generation of tropho...)

Trophoblast-like cells (Generation of tropho...)

Endoderm-like cells (Derivation of pancre...)

Endocrine progenitors (Generation of pancre...)

Anterior neural specified EBs (Differentiation of h...)

Pancreatic endoderm/endocrine precursor-like cells (A scalable, suspensi...)

Mesendoderm (Derivation and sorti...)

See CDX2 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for CDX2

SOURCE GeneReport for Unigene cluster: Hs.174249

SABiosciences Expression via Pathway-Focused 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 genome-wide validated SYBR primer pairs in human, mouse, rat for CDX2 Browse OriGene validated miRNA SYBR primer pairs
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		QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CDX2
		QIAGEN 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

This gene was present in the common ancestor of animals.

Orthologs for CDX2 gene from 6/24 species (see all 24) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
chicken (Gallus gallus)	Aves	CDX2¹	caudal type homeobox 2	76.35(n) 72.08(a)		374205 NM_204311.1 NP_989642.1
lizard (Anolis carolinensis)	Reptilia	CDX2⁶	--	96(a)	1 ↔ 1	GL343306.1(1549900-1559581)
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
fruit fly (Drosophila melanogaster)	Insecta	cad¹	caudal	51.17(n) 46.5(a)		35341 NM_057606.5 NP_476954.1
worm (Caenorhabditis elegans)	Secernentea	pal-1⁶	Homeobox protein pal-1	20(a)	1 → many	III(4804673-4808676)

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)
About This Section

Paralogs for CDX2 gene

CDX1² CDX4²

17 SIMAP similar genes for CDX2 using alignment to 2 protein entries: CDX2_HUMAN (see all proteins):

HOX B6 HOXC13 HMX2 MNX1 CDX1 HOXD11

MSX1 NKX2-5 HOXA4 CDX4 HLX HOXB1

HOXB8 PAX6 PITX2 MEOX1 PRRX2

CDX2 for paralogs About GeneDecksing

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, UniProtKB, 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

SNP ID	Valid	Clinical significance	Chr 13 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs79038588^1,2		--	28535761(+)	`GCTCAC/TGGAAA`	1	--	ds500¹		1		NA	120
rs200320749^1,2		--	28535826(+)	`GGGGA-/TTTTTT`	1	--	ds500¹		0	--	--	--	--
rs11291875^1,2	C,	--	28535835(+)	`TTTTT-/AAAAAA`	1	--	ds500¹		2		NA CSA	4
rs80106665^1,2		--	28535835(+)	`TTTTTA/TAAAAA`	1	--	ds500¹		0	--	--	--	--
rs75162685^1,2		--	28535842(+)	`AAAAAA/TTTTAA`	1	--	ds500¹		0	--	--	--	--
rs74792463^1,2		--	28536786(+)	`CTGCCC/TGGAGG`	1	--	ut3¹		0	--	--	--	--
rs148574915^1,2		--	28536884(+)	`CCCTCA/GGCTCT`	1	--	ut3¹		0	--	--	--	--
rs2481952^1,2	C,F,A,H,	--	28536901(+)	`AGGTGC/TAGCCT`	1	--	ut3¹ ese³		22		NS EA NA CSA WA	2342
rs34963801^1,2	C,F,	--	28537005(+)	`CAGCGG/AAGGCT`	1	--	ut3¹		5		NA	128
rs181110828^1,2		--	28537147(+)	`GGTCTA/GTGGCT`	1	--	ut3¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for CDX2 (28535826 - 28545276 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for CDX2: --
Human Gene Mutation Database (HGMD): CDX2

SABiosciences Cancer Mutation PCR Assays

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(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.)
About This Section

CDX2 for disorders           About GeneDecksing

OMIM gene information: 600297    OMIM disorders: --

20/98 diseases for CDX2 (see all 98):    About MalaCards

pseudomyxoma peritonei signet ring cell adenocarcinoma familial adenomatous polyposis adenomatous polyposis coli

ampulla of vater adenocarcinoma barrett's esophagus gastroesophageal reflux disease bile duct carcinoma

inverted papilloma ovarian mucinous neoplasm horseshoe kidney adult acute lymphocytic leukemia

intestinal neuroendocrine tumor bile reflux small intestine adenocarcinoma colorectal cancer with chromosomal instability

atrophic gastritis neuroendocrine tumor mucinous adenocarcinoma acute lymphocytic leukemia

6 diseases from the University of Copenhagen DISEASES database for CDX2:

Carcinoma Colorectal cancer Bladder adenocarcinoma Gastritis

Adenoma Stomach cancer

10/80 Novoseek 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)
About This Section

PubMed articles for CDX2 gene, integrated from 9 sources (see all 482):
(articles sorted by number of sources associating them with CDX2)

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world of online information

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. (1997)
CDX2 polymorphisms, RNA expression, and risk of colorectal cancer. (PubMed id 15994917)^{1, 4, 9} Rozek L.S....Gruber S.B. (2005)
Cloning and chromosome assignment of the human CDX2 gene. (PubMed id 9459001)^{1, 2, 9} Drummond F.J.... Edwards Y.H. (1997)
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)
The homeobox gene CDX2 in colorectal carcinoma: a genetic analysis. (PubMed id 11161380)^{1, 2} Sivagnanasundaram S....Edwards Y.H. (2001)
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. (1994)
Silencing of CDX2 expression in colon cancer via a dominant repression pathway. (PubMed id 12947088)^{1, 9} Hinoi T....Fearon E.R. (2003)
CDX2 expression is progressively decreased in human gastric intestinal metaplasia, dysplasia and cancer. (PubMed id 17906616)^{1, 9} Liu Q....Yeoh K.G. (2007)
Aberrant Cdx2 expression in endometrial lesions with squamous differentiation: important role of Cdx2 in squamous morula formation. (PubMed id 18495206)^{1, 9} Wani Y....Tsukayama C. (2008)
CDX2 expression in the intestinal-type gastric epithe lial neoplasia: frequency and significance. (PubMed id 19820687)^{1, 9} Park d.o. .Y....Lauwers G.Y. (2010)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

		AND	OR
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: 1045	HGNC: 1806	AceView: CDX2	Ensembl:ENSG00000165556	euGenes: HUgn1045
ECgene: CDX2	H-InvDB: CDX2

(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

Name	Description
PharmGKB entry for CDX2	Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for CDX2	Genetics and Cytogenetics in Oncology and Haematology

Intellectual Property for CDX2 gene
(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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caudal type homeobox 2

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CDX2 Gene

caudal type homeobox 2

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