Abstract: Branches, leaves and phloem of apple (Malus domestica Brkn) collected from an old orchard in Yanji, Xinjiang were used for total RNA isolation specific fragments of Apple fruit crinkle viroid (AFCVd) were amplified by RT-PCR using the primers disigned according to the sequence AB104558 on GenBank. Ten sequences were obtained through recovering, cloning and sequencing, and also registered in GenBank (accession No. EU031507~EU031516). Then cDNA probe laballed by Digoxigenin using plasmids containing targent DNA of AFCVd was composed and used for AFCVd detection. At the same time, in situ RT-PCR of AFCVd for further detection proved the presence of AFCVd in apple leaf, mainly located in nucleus of mesophyll cell.