MicroRNAs (miRNAs) are small, noncoding RNAs that play a vital role in gene regulation for many
biological processes by binding target transcripts and marking them for degradation or post-
transcriptional silencing. miRNAs undergo maturation within the nucleus beginning with cleavage of
primary miRNA (pri-miRNA) by Drosha/DGCR8 to form premature miRNA (pre-miRNA). Whether this
recognition relies more heavily on sequence motifs or structural features within the pri-miRNA is
unknown. Algorithms based upon these potential recognition motifs predict many more miRNA
sequences within the human genome than have been observed. To investigate the type of features that
target a sequence for miRNA processing, we conduct a library screen of miRNA sequences within
HEK293T cells to obtain a global view of miRNA processing. A reporter system consisting of GFP-P2A-
puromycin and a mCherry—pri-miRNA fusion library was utilized. Library sequences that are processed
by Drosha/DGCR8 lead to cleavage and degradation of the mCherry transcript and a decrease in
fluorescence. These sequences are then analyzed for sequence motifs or structural features to elucidate
how miRNAs are recognized and targeted for maturation.