To illustrate the structure and sequence characteristics of chloroplast genome from Melicope pteleifolia,the leaf of M.pteleifolia was used for DNA isolation and library construction.The high-throughput sequencing was fulfilled by Novaseq platform,and then acquired sequence was assembled,annotated and analyzed using bioinformatics means.The results revealed that the chloroplast genome of M.pteleifolia was a circular quadripartite molecule with a size of 158 992 bp and encoded 134 genes.Altogether 86 simple sequence repeat was found in the plastome and the A/T mononucleotide was predominate type.Total 26 907 codon was screened out and those ended with A/T were frequently used.Sequence comparison demonstrated more divergence and occurred in non-coding region between M.pteleifolia and other Rutaceae species.Phylogenetic tree indicated various chloroplast genome sequences of M.pteleifolia shared close relationship and exhibited diversity in gene composition and base sequence.