The dataset of intergenic spacer regions, trnK–rps16, psbI–atpA, trnH–psbA, psbK–psbI, ndhC–trnV, and rbcL–accD from the complete chloroplast genome of Hoya lockii V.T. Pham & Aver. and other species of the genus Hoya

This dataset comprises alignment files of six chloroplast intergenic spacer regions and their concatenated sequences used for phylogenetic analysis in MEGA. The six intergenic regions (trnK–rps16, psbI–atpA, trnH–psbA, psbK–psbI, ndhC–trnV, and rbcL–accD) were extracted from the chloroplast genomes of 30 species representing the genera Hoya, Dischidia, Gymnema, Papuahoya, and Stephanotis within the family Apocynaceae, including 26 Hoya species. These regions were employed for molecular evolutionary analyses and phylogenetic reconstruction based on both single-locus and concatenated multi-locus datasets.