Selection of RNAi-based inhibitors for anti-HIV gene therapy

Figure 3 Target sites of anti-human immunodeficiency virus short hairpin RNAs. Depicted is the human immunodeficiency virus type 1 (HIV-1) LAI proviral genome with short hairpin RNA (shRNA) target sites that yielded > 80% suppression of HIV-1 production. Several clusters of overlapping shRNA targets are indicated. The shRNAs have been designed based on conservedness of the target sequence (upper panel) or accessibility in the structured HIV-1 RNA genome (lower panel). shRNAs selected for the R3 combinatorial RNA interference vector are marked in red.