【Objective】 To study the structural characteristics and phylogenetic position of the chloroplast genome of I. chishuiensis, with a view to providing scientific basis for the conservation of plant germplasm resources, genetic diversity and phylogenetic study of I. chishuiensis. 【Methods】 Based on the chloroplast genome sequence of I. chishuiensis flower, a Chinese endemic species, the chloroplast genome was assembled, annotated, gene characterised, sequence duplicated and phylogenetically analysed using bioinformatics software.【Results】 (1) The chloroplast genome of I. chishuiensis has a typical tetrameric structure with a total GC content of 37% and a length of 152 892 bp; it encodes a total of 113 genes, including 88 protein-coding genes, 8 rRNA genes, and 17 tRNA genes. (2) A total of 76 SSR sequences were detected in the sequence; 50 842 codons were detected, with leucine (Leu) being the most abundant and tryptophan (Tyr) being the least. (3) Impatiens was divided into two subgenera--subg. Clavicarpa and subg. Impatiens, and I. chishuiensis is a species of subg. Clavicarpa and has the closest affinity with I. alpicola. 【Conclusion】 I. chishuiensis is a typical tetrad structure, and the SSR sequence is dominated by the A/T single base; the results of phylogenetic analyses place it in the subg. Clavicarpa.