Aragoa is a genus endemic to the páramos of Colombia and Venezuela. The systematic position of the genus has been controversial because of its peculiar morphological features, although many authors have placed it in Scrophulariaceae. Because of this and the fact that the delimitation of Scrophulariaceae and allied families has recently changed, a molecular analysis is used here to investigate the phylogenetic position of the genus. Both rbcL and ITS sequences show that Aragoa is sister to Plantago, in a clade including also Veronica, Hemiphragma, and Digitalis. These results put in doubt previous hypotheses about the biogeography of this páramo genus and indicate that more phylogenetic analyses are necessary to study the history of the páramo biota.