Object To identify the characteristics of 18S rRNA from the root of Panax pseudoginsengWall var. notoginseng (Burkill) Hoo et Tseng (PGSN). Methods The primers were designed according to the gene sequence of 18S rRNA from the model plant arabidopsis thaliana. 18S rRNA gene sequence of PGSN were cloned and sequenced and compared with that of the model plant A. thaliana and P. pseudoginseng subsp.Wall himalacus var. angustifolius. Results Part of the characteristics of ribosomal 18S rRNA gene sequence of PGSN from Jingxi, Guangxi Province were identified, which revealed that the 18S rRNA gene sequence of PGSN was 98% similar to that of P. pseudoginseng subsp. himalalaicus var . angustifolius and 96% similar to that of the model plant A. thaliana. Conclusion The use of informations obtained from the model plant, A. thaliana may promote the research progress of molecular biology of TCM drugs.