Coffea arabica is major cultivated species of coffee. We selected cold hardiness of C. arabica (named as CH3) based on selection of coffee seeds in Jeju Island, Korea. Here, we presented complete chloroplast genome of cold resistance C. arabica which is 155,192 bp long and has four subregions: 85,163 bp of large single copy (LSC) and 18,137 bp of small single copy (SSC) regions are separated by 25,946 bp of inverted repeat (IR) regions including 131 genes (86 protein-coding genes, eight rRNAs, and 37 tRNAs). The overall GC content of the chloroplast genome is 37.4\% and those in the LSC, SSC, and IR regions are 35.3\%, 31.3\%, and 43.0\%, respectively. Three non-synonymous single nucleotide polymorphisms and three insertions and deletions are found, indicating that further analysis will be required to understand genetic elements of cold hardiness of CH3.