The genus Salix belonging to family Salicaceae contains around 500 species all over the world. Most of Salix species are distributed in Northern hemisphere. 22 Salix species have been identified in South Korea. Salix koriyanagi Kimura is Korean endemic willow usually located nearby streams and it has been utilized as a traditional medicine because it contains salicylic and tannic acids. Interestingly, morphology of Salix purpurea, of which genome was published as a second genome in Salix genus, is very similar to that of S. koriyanagi and both species were clustered into one clade in molecular phylogenic study. To understand more about S. koriyanagi genome, we sequenced it using HiSeq 2000 with four different libraries. Total length of genome is 511.97 Mb (N50 is 3,130bp), covering 70\% of k-mer analysis result (703 Mb). and maximum length of scaffold is 261,948bp. InterProScan was executed for annotating functional domains from both species, presenting that 85.95\% (5,826) functional domains are shared with each other. Around 49Mb sequences of S. koriyanagi genome were successfully aligned against 65Mb region of S. purpurea genome, which is different from similarity of morphology and molecular phylogeny. With in-depth analysis of S. koriyanagi genome, relationship between S. koriyanagi and S. purpurea will be established at various levels including genome-wide level.