Stemona japonica is a species of perennial, flowering and herbaceous vines in the genus Stemona and the family Stemonaceae. In this study, we presented and annotated the complete chloroplast genome of S. japonica, which the chloroplast genome length was 154,224 bp, containing a large single-copy region (LSC) of 82,118 bp, a small single-copy region (SSC) of 17,938 bp and two same inverted repeat regions (IR) of 27,084 bp. The cp genome of S. japonica comprised 134 genes that included 88 protein-coding genes (PCGs), 38 transfer RNA (tRNA) genes and 8 ribosomal RNA (rRNA) genes. The overall nucleotide of cp genome composition is: A of 47,338 bp (30.7%), T of 48,206 bp (31.3%), C of 29,528 bp (19.1%), and G of 29,101 bp (18.9%), with a total A + T content of 62.0% and G + C content of 38.0%. Phylogenetic Neighbor-Joining (NJ) analysis based on 11 plants species chloroplast genomes with Stemona japonica, the result shown that Stemona japonica is closely related to Stemona mairei in evolutionary relationship. [ABSTRACT FROM AUTHOR]