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GeneE
26 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
PITX2
paired like homeodomain 2
Chromosome 4 Β· 4q25
NCBI Gene: 5308Ensembl: ENSG00000164093.18HGNC: HGNC:9005UniProt: Q99697
226PubMed Papers
23Diseases
0Drugs
80Pathogenic Variants
FUNCTIONAL ROLE
Transcription Factor
RESEARCH IMPACT
TrendingVariant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
DNA-binding transcription factor activity, RNA polymerase II-specifictranscription regulator complextranscription cis-regulatory region bindingregulation of transcription by RNA polymerase IIAxenfeld-Rieger syndrome type 1anterior segment dysgenesis 4ring dermoid of corneaatrial fibrillation
✦AI Summary

PITX2 is a homeodomain transcription factor primarily known for establishing left-right asymmetry during embryonic development 1. In the adult heart, PITX2 is specifically expressed in left atrial cardiomyocytes, where it regulates critical cardiac functions 1. PITX2 controls mitochondrial gene expression and metabolic homeostasis; PITX2 deficiency impairs mitochondrial respiration and shifts metabolism toward glycolysis, causing disorganized sarcomeres and increased spontaneous beating rates 2. Beyond cardiac development, PITX2 is essential for odontogenesis and iris morphogenesis 3. Mechanistically, PITX2 acts as a redox regulator that suppresses mitochondrial ROS production in cardiomyocytes; its expression is suppressed by Nrf3-mediated promoter methylation following cardiac injury 4. PITX2 expression is conversely upregulated by NOX2-derived ROS in obesity-mediated atrial fibrillation 5. Clinically, PITX2 variants are strongly associated with atrial fibrillation risk; genome-wide association studies identified PITX2 on chromosome 4 as a major AF susceptibility locus 6, and reduced PITX2 levels correlate with atrial cardiomyopathy and electrical remodeling 1. PITX2 mutations also cause Axenfeld-Rieger syndrome with ocular anterior segment dysgenesis 7.

Sources cited
1
PITX2 is a redox regulator suppressed by Nrf3-mediated DNA methylation; cardiac-specific PITX2 overexpression attenuates MI-induced mitochondrial ROS and cardiomyocyte apoptosis
PMID: 40099370
2
NOX2-mediated ROS upregulates PITX2 expression in obesity-mediated atrial fibrillation through transcriptomic remodeling
PMID: 39146015
3
PITX2 is a key transcription factor regulating odontogenesis and tooth development alongside other signaling pathways
PMID: 40649989
4
PITX2 deficiency causes atrial mitochondrial dysfunction with altered mitochondrial protein expression, reduced respiration, increased glycolysis, and disorganized sarcomeres in human atrial cardiomyocytes
PMID: 39129206
5
PITX2 is expressed in adult left atrium; regulates right-left cardiac differentiation; Pitx2 deficiency causes electrical and structural remodeling predisposing to atrial fibrillation
PMID: 28217939
6
PITX2 locus on chromosome 4q25 identified as genome-wide significant AF susceptibility locus shared across populations and associated with enhanced AF risk prediction
PMID: 40645996
7
PITX2 mutations are common pathogenic variants in Axenfeld-Rieger syndrome with ocular anterior segment dysgenesis; missense variants concentrate in homeodomain
PMID: 36442680
8
PITX2 methylation was evaluated in breast cancer chemoresistance but showed no significant correlation with TFEB pathway regulation
PMID: 34663249
Disease Associationsβ“˜23
Axenfeld-Rieger syndrome type 1Open Targets
0.82Strong
anterior segment dysgenesis 4Open Targets
0.79Strong
ring dermoid of corneaOpen Targets
0.72Strong
atrial fibrillationOpen Targets
0.56Moderate
anterior segment dysgenesisOpen Targets
0.55Moderate
appendicitisOpen Targets
0.53Moderate
neurodegenerative diseaseOpen Targets
0.53Moderate
Axenfeld-Rieger syndromeOpen Targets
0.52Moderate
Peters anomalyOpen Targets
0.52Moderate
cardiac arrhythmiaOpen Targets
0.50Moderate
atrial flutterOpen Targets
0.49Moderate
genetic disorderOpen Targets
0.47Moderate
Rieger anomalyOpen Targets
0.46Moderate
heart diseaseOpen Targets
0.46Moderate
heart failureOpen Targets
0.46Moderate
Ischemic strokeOpen Targets
0.46Moderate
Ocular anterior segment dysgenesisOpen Targets
0.45Moderate
cardioembolic strokeOpen Targets
0.45Moderate
strokeOpen Targets
0.45Moderate
familial atrial fibrillationOpen Targets
0.45Moderate
Anterior segment dysgenesis 4UniProt
Axenfeld-Rieger syndrome 1UniProt
Ring dermoid of corneaUniProt
Pathogenic Variants80
NM_000325.6(PITX2):c.286C>T (p.Arg96Trp)Pathogenic
Axenfeld-Rieger syndrome type 1;Anterior segment dysgenesis 4|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 96
NM_000325.6(PITX2):c.416G>C (p.Trp139Ser)Pathogenic
Axenfeld-Rieger syndrome type 1;Anterior segment dysgenesis 4|Axenfeld-Rieger syndrome type 1
β˜…β˜…β˜†β˜†2024β†’ Residue 139
NM_000325.6(PITX2):c.412-11A>GPathogenic
Axenfeld-Rieger syndrome type 1|not provided|Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1
β˜…β˜…β˜†β˜†2024
NM_000325.6(PITX2):c.344G>A (p.Arg115His)Pathogenic
Ring dermoid of cornea|Anterior segment dysgenesis|Axenfeld-Rieger syndrome type 1|Inborn genetic diseases|Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1
β˜…β˜…β˜†β˜†2024β†’ Residue 115
NM_000325.6(PITX2):c.448_449del (p.Arg150fs)Pathogenic
Axenfeld-Rieger syndrome type 1;Anterior segment dysgenesis 4|Axenfeld-Rieger syndrome type 1|Inborn genetic diseases
β˜…β˜…β˜†β˜†2024β†’ Residue 150
NM_000325.6(PITX2):c.430C>T (p.Arg144Trp)Likely pathogenic
Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1|Axenfeld-Rieger syndrome type 1|not provided
β˜…β˜…β˜†β˜†2023β†’ Residue 144
NM_000325.6(PITX2):c.515del (p.Gln172fs)Pathogenic
Axenfeld-Rieger syndrome type 1|Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1
β˜…β˜…β˜†β˜†2023β†’ Residue 172
NM_000325.6(PITX2):c.839del (p.Tyr280fs)Pathogenic
Axenfeld-Rieger anomaly with partially absent eye muscles, distinctive face, hydrocephaly, and skeletal abnormalities|Anterior segment dysgenesis 4
β˜…β˜…β˜†β˜†2023β†’ Residue 280
NM_000325.6(PITX2):c.522C>G (p.Tyr174Ter)Pathogenic
Axenfeld-Rieger syndrome type 1;Anterior segment dysgenesis 4|Axenfeld-Rieger syndrome type 1
β˜…β˜…β˜†β˜†2022β†’ Residue 174
NM_000325.6(PITX2):c.412-2A>GPathogenic
Axenfeld-Rieger syndrome type 1|Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1
β˜…β˜…β˜†β˜†2022
NM_000325.6(PITX2):c.411+1G>APathogenic
Axenfeld-Rieger syndrome type 1
β˜…β˜…β˜†β˜†2022
NM_000325.6(PITX2):c.431G>C (p.Arg144Pro)Pathogenic
Axenfeld-Rieger syndrome type 1|Inborn genetic diseases
β˜…β˜…β˜†β˜†2022β†’ Residue 144
NM_000325.6(PITX2):c.592_604dup (p.Pro202fs)Pathogenic
Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1
β˜…β˜†β˜†β˜†2026β†’ Residue 202
NM_000325.6(PITX2):c.838del (p.Tyr280fs)Pathogenic
Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1
β˜…β˜†β˜†β˜†2025β†’ Residue 280
NM_000325.6(PITX2):c.350del (p.Pro117fs)Pathogenic
Axenfeld-Rieger syndrome
β˜…β˜†β˜†β˜†2025β†’ Residue 117
NM_000325.6(PITX2):c.256_257insA (p.Pro86fs)Pathogenic
Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1
β˜…β˜†β˜†β˜†2025β†’ Residue 86
NM_000325.6(PITX2):c.815_818dup (p.Pro274fs)Likely pathogenic
Axenfeld-Rieger syndrome type 1
β˜…β˜†β˜†β˜†2025β†’ Residue 274
NM_000325.6(PITX2):c.429_430delinsAG (p.Arg144Gly)Pathogenic
Anterior segment dysgenesis 4;Axenfeld-Rieger syndrome type 1
β˜…β˜†β˜†β˜†2024β†’ Residue 144
NM_000325.6(PITX2):c.430dup (p.Arg144fs)Likely pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 144
NM_000325.6(PITX2):c.857C>T (p.Ser286Leu)Likely pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 286
View on ClinVar β†—
Related Genes
LEFTY2Protein interaction97%SHHProtein interaction92%LHX3Protein interaction88%LEFTY1Protein interaction87%LEF1Protein interaction83%FOXC1Protein interaction83%
Tissue Expression6 tissues
Heart
100%
Liver
50%
Ovary
50%
Lung
50%
Brain
13%
Bone Marrow
0%
Gene Interaction Network
Click a node to explore
PITX2LEFTY2SHHLHX3LEFTY1LEF1FOXC1
PROTEIN STRUCTURE
Preparing viewer…
PDB2L7F Β· NMR
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.41Moderately Constrained
pLIβ“˜
1.00Intolerant
Observed/Expected LoF0.20 [0.10–0.41]
RankingsWhere PITX2 stands among ~20K protein-coding genes
  • #1,796of 20,598
    Most Researched226 Β· top 10%
  • #928of 5,498
    Most Pathogenic Variants80 Β· top quartile
  • #2,101of 17,882
    Most Constrained (LOEUF)0.41 Β· top quartile
Genes detectedPITX2
Sources retrieved26 papers
Response timeβ€”
πŸ“„ Sources
26β–Ό
1
Nrf3-Mediated Mitochondrial Superoxide Promotes Cardiomyocyte Apoptosis and Impairs Cardiac Functions by Suppressing Pitx2.
PMID: 40099370
Circulation Β· 2025
1.00
2
Modulation of NOX2 causes obesity-mediated atrial fibrillation.
PMID: 39146015
J Clin Invest Β· 2024
0.90
3
The Morphogenesis, Pathogenesis, and Molecular Regulation of Human Tooth Development-A Histological Review.
PMID: 40649989
Int J Mol Sci Β· 2025
0.80
4
PITX2 deficiency and associated human disease: insights from the zebrafish model.
PMID: 29506241
Hum Mol Genet Β· 2018
0.72
5
PITX2 deficiency leads to atrial mitochondrial dysfunction.
PMID: 39129206
Cardiovasc Res Β· 2024
0.70