Details for: CDX1

Gene ID: 1044

Symbol: CDX1

Ensembl ID: ENSG00000113722

Description: caudal type homeobox 1

Associated with

  • Anterior/posterior axis specification
    (GO:0009948)
  • Bone morphogenesis
    (GO:0060349)
  • Cell differentiation
    (GO:0030154)
  • Chromatin
    (GO:0000785)
  • Digestive tract development
    (GO:0048565)
  • Dna-binding transcription activator activity, rna polymerase ii-specific
    (GO:0001228)
  • Dna-binding transcription factor activity
    (GO:0003700)
  • Dna-binding transcription factor activity, rna polymerase ii-specific
    (GO:0000981)
  • Embryonic pattern specification
    (GO:0009880)
  • Methyl-cpg binding
    (GO:0008327)
  • Nucleus
    (GO:0005634)
  • Positive regulation of transcription by rna polymerase ii
    (GO:0045944)
  • Protein binding
    (GO:0005515)
  • Regulation of somitogenesis
    (GO:0014807)
  • Regulation of transcription by rna polymerase ii
    (GO:0006357)
  • Rna polymerase ii cis-regulatory region sequence-specific dna binding
    (GO:0000978)
  • Rna polymerase ii transcription regulatory region sequence-specific dna binding
    (GO:0000977)
  • Sequence-specific double-stranded dna binding
    (GO:1990837)
  • Transcription cis-regulatory region binding
    (GO:0000976)

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: ileal goblet cell (CL1000326)
    Fold Change: 5.2010
    Cell Significance Index: -3.4900
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: 4.1721
    Cell Significance Index: 120.2100
  • Cell Name: large intestine goblet cell (CL1000320)
    Fold Change: 3.5727
    Cell Significance Index: 38.7200
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: 3.3946
    Cell Significance Index: 3065.1000
  • Cell Name: tuft cell of small intestine (CL0009080)
    Fold Change: 3.1880
    Cell Significance Index: 32.1600
  • Cell Name: CD8-alpha-beta-positive, alpha-beta intraepithelial T cell (CL0000796)
    Fold Change: 2.3126
    Cell Significance Index: -6.2000
  • Cell Name: paneth cell of colon (CL0009009)
    Fold Change: 2.2050
    Cell Significance Index: 33.0400
  • Cell Name: fallopian tube secretory epithelial cell (CL4030006)
    Fold Change: 1.5073
    Cell Significance Index: 23.3200
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: 1.3418
    Cell Significance Index: 47.1500
  • Cell Name: germ cell (CL0000586)
    Fold Change: 1.2304
    Cell Significance Index: 9.2900
  • Cell Name: enteroendocrine cell of small intestine (CL0009006)
    Fold Change: 1.0893
    Cell Significance Index: 27.2300
  • Cell Name: transit amplifying cell of colon (CL0009011)
    Fold Change: 1.0769
    Cell Significance Index: 34.4900
  • Cell Name: thymocyte (CL0000893)
    Fold Change: 1.0242
    Cell Significance Index: 12.9400
  • Cell Name: intestinal crypt stem cell (CL0002250)
    Fold Change: 0.9322
    Cell Significance Index: 6.5600
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 0.7575
    Cell Significance Index: 74.9400
  • Cell Name: intestinal crypt stem cell of small intestine (CL0009017)
    Fold Change: 0.6564
    Cell Significance Index: 13.9800
  • Cell Name: cytotoxic T cell (CL0000910)
    Fold Change: 0.6477
    Cell Significance Index: 9.4400
  • Cell Name: intestinal crypt stem cell of large intestine (CL0009016)
    Fold Change: 0.5788
    Cell Significance Index: 5.0600
  • Cell Name: colonocyte (CL1000347)
    Fold Change: 0.3770
    Cell Significance Index: 2.3300
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 0.3497
    Cell Significance Index: 66.5500
  • Cell Name: keratocyte (CL0002363)
    Fold Change: 0.3379
    Cell Significance Index: 5.3600
  • Cell Name: intestinal enteroendocrine cell (CL1001516)
    Fold Change: 0.3335
    Cell Significance Index: 2.7000
  • Cell Name: stem cell (CL0000034)
    Fold Change: 0.1871
    Cell Significance Index: 1.3600
  • Cell Name: intestinal epithelial cell (CL0002563)
    Fold Change: 0.1797
    Cell Significance Index: 1.8600
  • Cell Name: precursor cell (CL0011115)
    Fold Change: 0.1780
    Cell Significance Index: 1.3500
  • Cell Name: hematopoietic stem cell (CL0000037)
    Fold Change: 0.1512
    Cell Significance Index: 2.5900
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: 0.0933
    Cell Significance Index: 4.2300
  • Cell Name: enterocyte (CL0000584)
    Fold Change: 0.0613
    Cell Significance Index: 0.3800
  • Cell Name: urothelial cell (CL0000731)
    Fold Change: 0.0315
    Cell Significance Index: 0.2200
  • Cell Name: basal cell of epidermis (CL0002187)
    Fold Change: 0.0130
    Cell Significance Index: 0.2000
  • Cell Name: goblet cell (CL0000160)
    Fold Change: 0.0111
    Cell Significance Index: 0.1000
  • Cell Name: fibroblast of mammary gland (CL0002555)
    Fold Change: 0.0101
    Cell Significance Index: 0.2900
  • Cell Name: medial ganglionic eminence derived interneuron (CL4023063)
    Fold Change: 0.0063
    Cell Significance Index: 0.0900
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.0003
    Cell Significance Index: -0.0300
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: -0.0010
    Cell Significance Index: -1.8400
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: -0.0011
    Cell Significance Index: -2.1000
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: -0.0012
    Cell Significance Index: -1.7800
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: -0.0015
    Cell Significance Index: -2.0000
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0036
    Cell Significance Index: -2.7000
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0046
    Cell Significance Index: -2.6200
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: -0.0065
    Cell Significance Index: -0.1400
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: -0.0074
    Cell Significance Index: -1.0100
  • Cell Name: fibroblast of dermis (CL0002551)
    Fold Change: -0.0081
    Cell Significance Index: -0.1700
  • Cell Name: melanocyte of skin (CL1000458)
    Fold Change: -0.0093
    Cell Significance Index: -0.1300
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: -0.0094
    Cell Significance Index: -1.8600
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: -0.0095
    Cell Significance Index: -4.3000
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: -0.0103
    Cell Significance Index: -7.5600
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: -0.0109
    Cell Significance Index: -6.9500
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: -0.0110
    Cell Significance Index: -2.2100
  • Cell Name: fibro/adipogenic progenitor cell (CL0009099)
    Fold Change: -0.0122
    Cell Significance Index: -0.6200
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: -0.0128
    Cell Significance Index: -0.3600
  • Cell Name: lactocyte (CL0002325)
    Fold Change: -0.0150
    Cell Significance Index: -1.9400
  • Cell Name: pancreatic D cell (CL0000173)
    Fold Change: -0.0151
    Cell Significance Index: -3.1800
  • Cell Name: skeletal muscle fiber (CL0008002)
    Fold Change: -0.0152
    Cell Significance Index: -0.3900
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: -0.0160
    Cell Significance Index: -2.7400
  • Cell Name: neuron associated cell (CL0000095)
    Fold Change: -0.0168
    Cell Significance Index: -0.6900
  • Cell Name: precursor B cell (CL0000817)
    Fold Change: -0.0240
    Cell Significance Index: -0.3100
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: -0.0252
    Cell Significance Index: -7.2400
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.0252
    Cell Significance Index: -2.6200
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: -0.0254
    Cell Significance Index: -2.9600
  • Cell Name: inflammatory cell (CL0009002)
    Fold Change: -0.0262
    Cell Significance Index: -0.1500
  • Cell Name: progenitor cell of mammary luminal epithelium (CL0009116)
    Fold Change: -0.0271
    Cell Significance Index: -2.0200
  • Cell Name: squamous epithelial cell (CL0000076)
    Fold Change: -0.0280
    Cell Significance Index: -0.3400
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: -0.0286
    Cell Significance Index: -5.1500
  • Cell Name: epithelial cell (CL0000066)
    Fold Change: -0.0303
    Cell Significance Index: -0.3200
  • Cell Name: transit amplifying cell of small intestine (CL0009012)
    Fold Change: -0.0333
    Cell Significance Index: -0.6900
  • Cell Name: mesothelial cell of epicardium (CL0011019)
    Fold Change: -0.0337
    Cell Significance Index: -0.2900
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: -0.0379
    Cell Significance Index: -1.9700
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: -0.0383
    Cell Significance Index: -4.7100
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: -0.0387
    Cell Significance Index: -2.6000
  • Cell Name: eukaryotic cell (CL0000255)
    Fold Change: -0.0427
    Cell Significance Index: -1.8600
  • Cell Name: transit amplifying cell (CL0009010)
    Fold Change: -0.0448
    Cell Significance Index: -0.4300
  • Cell Name: fast muscle cell (CL0000190)
    Fold Change: -0.0458
    Cell Significance Index: -0.6000
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.0467
    Cell Significance Index: -6.8000
  • Cell Name: tendon cell (CL0000388)
    Fold Change: -0.0493
    Cell Significance Index: -0.6700
  • Cell Name: fibroblast of breast (CL4006000)
    Fold Change: -0.0509
    Cell Significance Index: -0.3200
  • Cell Name: helper T cell (CL0000912)
    Fold Change: -0.0520
    Cell Significance Index: -0.7400
  • Cell Name: colon epithelial cell (CL0011108)
    Fold Change: -0.0545
    Cell Significance Index: -0.3200
  • Cell Name: myometrial cell (CL0002366)
    Fold Change: -0.0556
    Cell Significance Index: -0.6400
  • Cell Name: retinal blood vessel endothelial cell (CL0002585)
    Fold Change: -0.0565
    Cell Significance Index: -0.7300
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: -0.0577
    Cell Significance Index: -3.2400
  • Cell Name: osteoblast (CL0000062)
    Fold Change: -0.0598
    Cell Significance Index: -0.5800
  • Cell Name: lens fiber cell (CL0011004)
    Fold Change: -0.0610
    Cell Significance Index: -1.9300
  • Cell Name: progenitor cell (CL0011026)
    Fold Change: -0.0621
    Cell Significance Index: -0.6600
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: -0.0631
    Cell Significance Index: -3.8700
  • Cell Name: fibroblast of connective tissue of glandular part of prostate (CL1000305)
    Fold Change: -0.0634
    Cell Significance Index: -0.7000
  • Cell Name: skeletal muscle myoblast (CL0000515)
    Fold Change: -0.0635
    Cell Significance Index: -0.6900
  • Cell Name: fibroblast of connective tissue of nonglandular part of prostate (CL1000304)
    Fold Change: -0.0660
    Cell Significance Index: -0.7200
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0694
    Cell Significance Index: -7.0900
  • Cell Name: intestine goblet cell (CL0019031)
    Fold Change: -0.0696
    Cell Significance Index: -0.6000
  • Cell Name: decidual cell (CL2000002)
    Fold Change: -0.0698
    Cell Significance Index: -1.1200
  • Cell Name: connective tissue cell (CL0002320)
    Fold Change: -0.0705
    Cell Significance Index: -0.6800
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -0.0726
    Cell Significance Index: -3.2100
  • Cell Name: myoblast (CL0000056)
    Fold Change: -0.0743
    Cell Significance Index: -0.7300
  • Cell Name: neural progenitor cell (CL0011020)
    Fold Change: -0.0748
    Cell Significance Index: -0.7400
  • Cell Name: professional antigen presenting cell (CL0000145)
    Fold Change: -0.0770
    Cell Significance Index: -0.7000
  • Cell Name: microcirculation associated smooth muscle cell (CL0008035)
    Fold Change: -0.0774
    Cell Significance Index: -0.6500
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: -0.0779
    Cell Significance Index: -4.7900
  • Cell Name: erythrocyte (CL0000232)
    Fold Change: -0.0781
    Cell Significance Index: -1.9900
  • Cell Name: L5 extratelencephalic projecting glutamatergic cortical neuron (CL4023041)
    Fold Change: -0.0805
    Cell Significance Index: -2.8200

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics:** CDX1 is a member of the homeobox gene family, characterized by its ability to bind to specific DNA sequences and regulate gene expression. Its expression is restricted to specific cell types, including microglial cells, colon epithelial cells, blood vessel endothelial cells, and intestinal crypt stem cells. CDX1 exhibits a high degree of specificity, with its expression patterns correlating with distinct cell types and tissues. **Pathways and Functions:** CDX1 is involved in multiple signaling pathways, including: 1. **Anterior/posterior axis specification**: CDX1 plays a crucial role in the development of the anterior/posterior axis, regulating the expression of genes involved in embryonic development. 2. **Cell differentiation**: CDX1 is essential for the differentiation of intestinal epithelial cells, promoting the transition from stem cells to enterocytes. 3. **Chromatin remodeling**: CDX1 interacts with chromatin-modifying enzymes, influencing the regulation of gene expression and chromatin structure. 4. **DNA-binding transcription activator activity**: CDX1 acts as a transcriptional activator, binding to specific DNA sequences and recruiting RNA polymerase II to initiate transcription. **Clinical Significance:** CDX1's involvement in immune system development and tissue differentiation makes it a critical gene in various diseases: 1. **Inflammatory bowel disease (IBD)**: CDX1 expression is altered in IBD patients, contributing to the pathogenesis of the disease. 2. **Cancer**: CDX1's role in regulating cell differentiation and proliferation makes it a potential target for cancer therapy. 3. **Neurological disorders**: CDX1's expression in microglial cells suggests its involvement in neuroinflammation and neurodegenerative diseases. **Conclusion:** In conclusion, CDX1 is a vital transcription factor that plays a critical role in regulating immune system development, tissue differentiation, and organogenesis. Its involvement in various diseases highlights the importance of understanding its function and regulation. Further research is necessary to elucidate the complex interactions between CDX1 and other transcription factors, ultimately leading to the development of novel therapeutic strategies for diseases associated with CDX1 dysregulation. **Recommendations:** 1. **Further investigation**: Conduct in-depth studies to elucidate the mechanisms by which CDX1 regulates gene expression and interacts with other transcription factors. 2. **Disease modeling**: Utilize CDX1 knockout or overexpression models to study its role in disease pathogenesis and to identify potential therapeutic targets. 3. **Clinical applications**: Develop novel therapeutic strategies targeting CDX1 to treat diseases associated with its dysregulation. **Future Directions:** The study of CDX1's role in immune system development and tissue differentiation will continue to uncover new insights into the mechanisms underlying various diseases. By elucidating the complex interactions between CDX1 and other transcription factors, we can develop novel therapeutic strategies for diseases associated with CDX1 dysregulation.

Genular Protein ID: 114721652

Symbol: CDX1_HUMAN

Name: Homeobox protein CDX-1

UniProtKB Accession Codes:

P47902 Q4VAU4 Q9NYK8

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CDD 1 CTD 1 DMDM 1 DNASU 1 DisGeNET 1 ELM 1 EMBL 5 Ensembl 1 ExpressionAtlas 1 GO 17 Gene3D 1 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 GlyGen 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 7 KEGG 1 MANE-Select 1 MIM 1 MINT 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PDB 2 PDBsum 2 PIR 2 PRINTS 2 PRO 1 PROSITE 2 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 2 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 2 RNAct 1 RefSeq 1 SIGNOR 1 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 8530027

Title: Isolation, characterization, and precise physical localization of human CDX1, a caudal-type homeobox gene.

PubMed ID: 8530027

DOI: 10.1006/geno.1995.1132

PubMed ID: 9036867

Title: 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

DOI: 10.1002/(sici)1097-0215(19970220)74:1<35::aid-ijc7>3.0.co;2-1

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 24623306

Title: A KRAS-directed transcriptional silencing pathway that mediates the CpG island methylator phenotype.

PubMed ID: 24623306

DOI: 10.7554/elife.02313

PubMed ID: 28473536

Title: Impact of cytosine methylation on DNA binding specificities of human transcription factors.

PubMed ID: 28473536

DOI: 10.1126/science.aaj2239

Sequence Information:

  • Length: 265
  • Mass: 28138
  • Checksum: 484CB284E3357BC6
  • Sequence:
    • MYVGYVLDKD SPVYPGPARP ASLGLGPQAY GPPAPPPAPP QYPDFSSYSH VEPAPAPPTA 
WGAPFPAPKD DWAAAYGPGP AAPAASPASL AFGPPPDFSP VPAPPGPGPG LLAQPLGGPG 
TPSSPGAQRP TPYEWMRRSV AAGGGGGSGK TRTKDKYRVV YTDHQRLELE KEFHYSRYIT 
IRRKSELAAN LGLTERQVKI WFQNRRAKER KVNKKKQQQQ QPPQPPMAHD ITATPAGPSL 
GGLCPSNTSL LATSSPMPVK EEFLP

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.