HomeAboutRankingsData Sources
Β© 2026 GeneE
🧬
GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 15 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
PHOX2A
paired like homeobox 2A
Chromosome 11 Β· 11q13.4
NCBI Gene: 401Ensembl: ENSG00000165462.5HGNC: HGNC:691UniProt: O14813
39PubMed Papers
21Diseases
0Drugs
2Pathogenic Variants
FUNCTIONAL ROLE
Transcription Factor
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
positive regulation of transcription by RNA polymerase IIRNA polymerase II transcription regulatory region sequence-specific DNA bindingnucleoplasmprotein bindingcongenital fibrosis of the extraocular musclescongenital fibrosis of extraocular musclesneurodegenerative diseaseAlzheimer disease
✦AI Summary

PHOX2A is a paired-like homeodomain transcription factor essential for autonomic nervous system development and noradrenergic neuron specification 1. It functions as a DNA-binding transcription activator that regulates catecholamine biosynthetic genes, including tyrosine hydroxylase and dopamine-beta-hydroxylase, maintaining noradrenergic phenotype 2. PHOX2A also regulates the alpha3 nicotinic acetylcholine receptor gene, a "pan-autonomic" gene expressed in all ganglionic cells, potentially through protein-protein interactions with Sp1 2. Expression of PHOX2A is regulated downstream by PHOX2B, which directly binds to PHOX2A's 5' regulatory region to transactivate its promoter 13. Functionally, PHOX2A knockouts in zebrafish recapitulate ocular congenital cranial dysinnervation disorder (oCCDD) phenotypes, demonstrating its critical role in cranial motor neuron development 45. Disease-relevant variants like p.(Trp137Cys) show reduced DNA-binding capability via protein binding microarray analysis 45. Additionally, PHOX2A is significantly overexpressed in neuroblastoma tumors and cell lines, suggesting involvement in neuroendocrine malignancy 6. Mutations in PHOX2A are associated with congenital fibrosis of extraocular muscles and other cranial motor disorders 7.

Sources cited
1
PHOX2A is a vertebrate homeodomain transcription factor involved in autonomic nervous system specification; Phox2b directly regulates PHOX2A expression by binding to its 5' regulatory region
PMID: 11549713
2
PHOX2A regulates tyrosine hydroxylase, dopamine-beta-hydroxylase, and alpha3 nicotinic acetylcholine receptor genes; may interact with Sp1 to regulate transcription
PMID: 17344216
3
Phox2b transactivates the human PHOX2A promoter; PHOX2A confers noradrenergic cell-specific gene expression
PMID: 11752063
4
PHOX2A knockouts in zebrafish recapitulate oCCDD phenotypes; the p.(Trp137Cys) variant shows reduced DNA binding
PMID: 39314366
5
PHOX2A knockout in zebrafish demonstrates its role in cranial motor development; p.(Trp137Cys) variant exhibits reduced or abolished DNA binding
PMID: 40162949
6
PHOX2A and PHOX2B are overexpressed in neuroblastoma tumors and cell lines with highly significant correlation
PMID: 18949361
7
Non-coding variants in regulatory elements controlling PHOX2A expression are candidates for congenital cranial dysinnervation disorders
PMID: 39333082
Disease Associationsβ“˜21
congenital fibrosis of the extraocular musclesOpen Targets
0.61Moderate
congenital fibrosis of extraocular musclesOpen Targets
0.46Moderate
neurodegenerative diseaseOpen Targets
0.42Moderate
Alzheimer diseaseOpen Targets
0.25Weak
Parkinson diseaseOpen Targets
0.25Weak
lysosomal storage diseaseOpen Targets
0.25Weak
multiple sclerosisOpen Targets
0.25Weak
genetic disorderOpen Targets
0.19Weak
alcohol drinkingOpen Targets
0.09Suggestive
MODYOpen Targets
0.08Suggestive
familial episodic pain syndrome with predominantly lower limb involvementOpen Targets
0.07Suggestive
type 1 diabetes mellitusOpen Targets
0.07Suggestive
orthostatic intoleranceOpen Targets
0.06Suggestive
diabetes mellitusOpen Targets
0.06Suggestive
amyotrophic lateral sclerosisOpen Targets
0.06Suggestive
type 2 diabetes mellitusOpen Targets
0.06Suggestive
adult-onset autosomal dominant demyelinating leukodystrophyOpen Targets
0.06Suggestive
maturity-onset diabetes of the young type 3Open Targets
0.06Suggestive
maturity-onset diabetes of the young type 10Open Targets
0.05Suggestive
maturity-onset diabetes of the young type 4Open Targets
0.05Suggestive
Fibrosis of extraocular muscles, congenital, 2UniProt
Pathogenic Variants2
NM_005169.4(PHOX2A):c.217+1G>APathogenic
Fibrosis of extraocular muscles, congenital, 2
β˜†β˜†β˜†β˜†2001
NM_005169.4(PHOX2A):c.406-1G>APathogenic
Fibrosis of extraocular muscles, congenital, 2
β˜†β˜†β˜†β˜†2001
View on ClinVar β†—
Related Genes
KIF21AProtein interaction96%ASCL1Protein interaction88%DBHProtein interaction88%TUBB3Protein interaction82%HAND2Protein interaction79%THProtein interaction72%
Tissue Expression6 tissues
Brain
100%
Ovary
0%
Liver
0%
Heart
0%
Lung
0%
Bone Marrow
0%
Gene Interaction Network
Click a node to explore
PHOX2AKIF21AASCL1DBHTUBB3HAND2TH
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt O14813
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
1.84LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF1.26 [0.81–1.84]
RankingsWhere PHOX2A stands among ~20K protein-coding genes
  • #10,374of 20,598
    Most Researched39
  • #4,469of 5,498
    Most Pathogenic Variants2
  • #16,805of 17,882
    Most Constrained (LOEUF)1.84
Genes detectedPHOX2A
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Sp proteins and Phox2b regulate the expression of the human Phox2a gene.
PMID: 11549713
J Neurosci Β· 2001
1.00
2
Transcription factor PHOX2A regulates the human alpha3 nicotinic receptor subunit gene promoter.
PMID: 17344216
J Biol Chem Β· 2007
0.90
3
A cell type-aware framework for nominating non-coding variants in Mendelian regulatory disorders.
PMID: 39333082
Nat Commun Β· 2024
0.80
4
PHOX2A and PHOX2B genes are highly co-expressed in human neuroblastoma.
PMID: 18949361
Int J Oncol Β· 2008
0.70
5
Gene Identification for Ocular Congenital Cranial Motor Neuron Disorders Using Human Sequencing, Zebrafish Screening, and Protein Binding Microarrays.
PMID: 40162949
Invest Ophthalmol Vis Sci Β· 2025
0.60