Analysis shRNA maturation products - Gu-Lab-RBL-NCI/QuagmiR GitHub Wiki
Similar to miRNA, products of shRNA biogenesis can be analyzed using QuagmiR. Regardless of their expression platform (pre-miRNA-like, pri-miRNA-like or Ago-shRNA structure), QuagmiR can be used to analyze mature shRNA overall expression and isoforms generated during its biogenesis or post maturation.
Figure. Structures involved in the different shRNA designs. Secondary structures of different shRNA designs. Triangles indicate cleavage sites of the RNases involved in the maturation process. Highlighted in pink is the putative location of shRNA guide sequence, and in red within the grey box are the described motifs. A) Pre-miRNA-like shRNA (‘‘first generation”), hairpin containing mir-22 hairpin B) Pri-miRNA-like shRNA (‘‘second generation”), based on the pri-mir-30a (note incomplete flanking 50 and 30 regions) C) Ago-shRNA based on pri-mir-451.(Enlarge Image)
