SMARTT - Aax U90C CDN riboswitch transcribed with 5 uM cAG (Replicate A)
A mutagenized library of template DNA was made via doped oligos from Keck Oligo Synthesis Resource at Yale University. Upstream of the aptamer were non-mutagenized regions including a handle for downstream PCR steps. This library served as the template for in vitro transcription termination reactions in the presence of differing ligand concentrations. Template DNA was degraded before a pre-adenylated adaptor was added to the 3' end. This adaptor served as a primer for reverse transcription into DNA. Illumina adaptors were added via a one-step PCR reaction.