Gene transcripts are under extensive posttranscriptional regulation, including the regulation of their
stability. A major route for mRNA degradation produces uncapped mRNAs, which can be generated by
decapping enzymes, endonucleases, and small RNAs. Profiling uncapped mRNA molecules is important for
the understanding of the transcriptome, whose composition is determined by a balance between mRNA
synthesis and degradation. In this chapter, we describe a method to profile these uncapped mRNAs at the
genome scale
