We report here the clinical, biochemical, and molecular findings in patients with primary and secondary PDCD caused by novel synonymous and deep intronic variants in PDHA1, PDHX, and TPK1. We demonstrate by complementary DNA (cDNA) analysis and/or RNA sequencing (RNAseq) that the identified variants cause exon skipping or intronic sequence inclusion in the mRNA of the affected genes. The gene discussed is PDHA1; the disease is pre-descemet corneal dystrophy.