The genus Hepatica Mill. consists of 11 species in the world and distributed in the temperate regions of Northern Hemisphere. Most taxa of Hepatica grow naturally in restricted area as endemic species except some taxa. In this study, we report chloroplast genome sequence of two Hepatica and three Anemone species for determining their relationships. The two Hepatica and three Anemone chloroplast genome sequences ranged from 155,912bp to 160,958bp in length. In Hepatica chloroplast genomes, 110 unique genes were annotated, including 76 protein coding genes 30 tRNA genes 4 rRNA genes. In Anemone chloroplast genomes, on the other hand, 112 unique gene were annotated, comprising 78 protein coding genes 30 tRNA genes 4 rRNA genes. Compared with other Ranunculaceae chloroplast genomes, Hepatica and Anemone chloroplast genomes were observed several events in large single copy region. One was revealed between trnH and rps16 gene as approximately 7.8-kb. And the other was revealed the large 47-kb inversion between ycf3 and trnG-GCC genes. Besides, the inversion of rps4 gene was observed. A phylogenetic analysis based on 70 protein coding genes for Ranunculales indicated that genus Anemone is related to Hepatica as a sister group and suggested that Ranunculaceae is monophyletic in Ranunculales.