Seroatlas · Human Serome Atlas

CDX2

Homeobox protein CDX-2

Also known as: CDX2_HUMAN, CDX3

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
Q99626
Gene
CDX2
Ensembl
ENSG00000165556
Chromosome
13
Canonical length
313 aa
Protein class
Cancer-related genes, Human disease related genes, Predicted intracellular proteins, Transcription factors
Subcellular location
Nucleoplasm,Vesicles,Cytosol
Quaternary structure
Homodimer

OverviewNCBI 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]

Canonical amino-acid sequenceUniProt

313 residues, UniProt reviewed canonical sequence.

>Q99626|CDX2
     1  MYVSYLLDKD VSMYPSSVRH SGGLNLAPQN FVSPPQYPDY GGYHVAAAAA AAANLDSAQS
    61  PGPSWPAAYG APLREDWNGY APGGAAAAAN AVAHGLNGGS PAAAMGYSSP ADYHPHHHPH
   121  HHPHHPAAAP SCASGLLQTL NPGPPGPAAT AAAEQLSPGG QRRNLCEWMR KPAQQSLGSQ
   181  VKTRTKDKYR VVYTDHQRLE LEKEFHYSRY ITIRRKAELA ATLGLSERQV KIWFQNRRAK
   241  ERKINKKKLQ QQQQQQPPQP PPPPPQPPQP QPGPLRSVPE PLSPVSSLQA SVPGSVPGVL
   301  GPTGGVLNPT VTQ

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CDX2 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Intracellular
Secreted
No
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.67
Highest tissue expression
45 nTPM

Expression across tissuesHPA

Tissue

  • colon: 45 nTPM
  • small intestine: 34 nTPM
  • rectum: 29 nTPM
  • duodenum: 27 nTPM
  • appendix: 4.7 nTPM
  • pancreas: 2.7 nTPM

Single-cell type

  • colonocytes: 285 nCPM
  • enteric stem cells: 219 nCPM
  • enterocytes: 217 nCPM
  • goblet cells: 194 nCPM
  • enteric transient amplifying cells: 193 nCPM
  • paneth cells: 151 nCPM

Immune cell

  • basophil: 0 nTPM
  • classical monocyte: 0 nTPM
  • eosinophil: 0 nTPM
  • gdT-cell: 0 nTPM
  • intermediate monocyte: 0 nTPM
  • MAIT T-cell: 0 nTPM

Brain region

  • thalamus: 0.2 nTPM
  • white matter: 0.2 nTPM
  • amygdala: 0.1 nTPM
  • basal ganglia: 0.1 nTPM
  • cerebellum: 0.1 nTPM
  • cerebral cortex: 0.1 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about CDX2.

Disease | GeneticClinVar

1 pathogenic / likely-pathogenic of 50 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

  • Sirenomelia

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.59
gnomAD pLI
0.53
gnomAD missense Z
1.06
DepMap mean gene effect
-0.06
DepMap dependency class
selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 3% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads CDX2 as an antibody target. Whether an autoantibody or antibody against CDX2 could matter depends on whether native CDX2 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CDX2 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label CDX2 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/CDX2. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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