Purpose: To investigate ontogenic expression of estrogen receptor (ER)-α in female rat corneas, as part of basic studies to elucidate the mechanism of estrogenic effects on the corneas. Methods: The expression and localization of ERα were determined using quantitative reverse transcribed-polymerase chain reaction methodology and immunohistochemistry in the corneas of female rats on day 14 of gestation and postnatal days (PNDs) 0, 21, and 60. Results: Quantitative analysis of ERα mRNA revealed that ERα gene expression increased approximately 4 times on PND 21 and about 10 times on PND 60, as compared with expression levels detected on PND 0. Immunohistochemical analysis revealed that expression of ERα protein was evident only in nuclei of the corneal epithelial cells from PND 21 onward. Conclusion: Ontogenic expression of ERα occurred in female rat corneas.