This study highlights the use of RAPD analysis for the assessment of somaclonal variation in the somatic seedlings established from cryopreserved embryogenic cultures. Our results indicated that there was no polymorphism detected with a set of primers tested for each genotype. There was 100% monomorphic banding pattern showing clonal uniformity in all the three genotypes of Pinus roxburghii between parental donor field grown plants (control 1), somatic seedlings from the cultures without cryopreservation (control 2) and somatic seedlings via cryopreserved cultures. The embryogenic system used in this study appears to be suitable for true-to-type clonal propagation of mature P. roxburghii trees.