Due to the unusual flowering behavior and long sexual cycle, the morphological exploration of bamboo solely cannot elucidate the taxonomic difficulties. So to validate and study the phyletic relation and the genetic diversity, molecular approaches were employed. In this study, different DNA fingerprinting techniques (RAPD and ISSR) were used to analyze the phylogenetic similarity among the 15 accessions of bamboos of district Kokrajhar, BTAD, Assam, India alongwith one out-group (Oryza sativa). 35 primers in total were used for RAPD analysis whereas ISSR analysis was carried out by using 25 primers. High polymorphism of DNA fragments were obtained from both ISSR and RAPD. Also the dendrogram was generated from the acquired data.