Table 1.

DNA oligos required to assemble the MedLoop motif (as in Fig. 1) and P4–P6 domain of the Tetrahymena ribozyme (as in Fig. 2) as well as three single nucleotide mutants of each constructs. The fluorescent primer used in the protocol for reverse transcription is shown in the last row. Sequence color codes are the same as in Figs. 1 and 3; mutations are colored in orange. All sequences are shown from 5′ to 3′. Abbreviations for modifi cation are those used by Integrated DNA Technologies (IDT): /5–6FAM/, 5′-6-fluorescein. For the P4–P6 domain, to avoid confusion, mutant positions are given with no offset (i.e., this numbering does not correspond with the nucleotide numbering of the full group I intron of the Tetrahymena ribozyme)

MedLoop WT	TTCTAATACGACTCACTATAGGAACGACGAACCGAAAACCGAAGAAATGAAGAAAGGTTTTCGGTACCGACCTG GTTGTTGTTGTTGTTTCTTTGGTTTTCAGGTCGGTACCGAAAACCTTTCTTCAT
MedLoop A01U	TTCTAATACGACTCACTATAGGAACGACGATCCGAAAACCGAAGAAATGAAGAAAGGTTTTCGGTACCGACCTG GTTGTTGTTGTTGTTTCTTTGGTTTTCAGGTCGGTACCGAAAACCTTTCTTCAT
MedLoop A23U	TTCTAATACGACTCACTATAGGAACGACGAACCGAAAACCGAAGAAATGAAGTAAGGTTTTCGGTACCGACCTG GTTGTTGTTGTTGTTTCTTTGGTTTTCAGGTCGGTACCGAAAACCTTACTTCAT
MedLoop U31A	TTCTAATACGACTCACTATAGGAACGACGAACCGAAAACCGAAGAAATGAAGAAAGGTTTACGGTACCGACCTG GTTGTTGTTGTTGTTTCTTTGGTTTTCAGGTCGGTACCGTAAACCTTTCTTCAT
P4–P6 domain WT	TTCTAATACGACTCACTATAGGCCAAAACAACGGAATTGCGGGAAAGGGGTCAACAGCCG GGCCATCTCAAAGTTTCCCCTGAGACTTGGTACTGAACGGCTGTTGACCCCTTTCCCG GGGAAACTTTGAGATGGCCTTGCAAAGGGTATGGTAATAAGCTGACGGAC GTTGACTTAGGACTTGGCTGCGTGGTTAGGACCATGTCCGTCAGCTTATTACCATAC CAGCCAAGTCCTAAGTCAACAGATCTTCTGTTGATATGGATGCAGTT GTTGTTGTTGTTGTTTCTTTGGTTTGGTTTTGAACTGCATCCATATCAACAGAAG
P4–P6 domain C32G	TTCTAATACGACTCACTATAGGCCAAAACAACGGAATTGCGGGAAAGGGGTGAACAGCCG GGCCATCTCAAAGTTTCCCCTGAGACTTGGTACTGAACGGCTGTTCACCCCTTTCCCG GGGAAACTTTGAGATGGCCTTGCAAAGGGTATGGTAATAAGCTGACGGAC GTTGACTTAGGACTTGGCTGCGTGGTTAGGACCATGTCCGTCAGCTTATTACCATAC CAGCCAAGTCCTAAGTCAACAGATCTTCTGTTGATATGGATGCAGTT GTTGTTGTTGTTGTTTCTTTGGTTTGGTTTTGAACTGCATCCATATCAACAGAAG
P4–P6 domain U64A	TTCTAATACGACTCACTATAGGCCAAAACAACGGAATTGCGGGAAAGGGGTCAACAGCCG GGCCATCTCAAAGATTCCCCTGAGACTTGCTACTGAACGGCTGTTGACCCCTTTCCCG GGGAATCTTTGAGATGGCCTTGCAAAGGGTATGGTAATAAGCTGACGGAC GTTGACTTAGGACTTGGCTGCGTGGTTAGGACCATGTCCGTCAGCTTATTACCATAC CAGCCAAGTCCTAAGTCAACAGATCTTCTGTTGATATGGATGCAGTT GTTGTTGTTGTTGTTTCTTTGGTTTGGTTTTGAACTGCATCCATATCAACAGAAG
P4–P6 domain U170A	TTCTAATACGACTCACTATAGGCCAAAACAACGGAATTGCGGGAAAGGGGTCAACAGCCG GGCCATCTCAAAGTTTCCCCTGAGACTTGGTACTGAACGGCTGTTGACCCCTTTCCCG GGGAAACTTTGAGATGGCCTTGCAAAGGGTATGGTAATAAGCTGACGGAC GTTGACTTAGGACTTGGCTGCGTGGTTAGGACCATGTCCGTCAGCTTATTACCATAC CAGCCAAGTCCTAAGTCAACAGATCTTCTGTTGATATGGATGCAGTA GTTGTTGTTGTTGTTTCTTTGGTTTGGTTTTGTACTGCATCCATATCAACAGAAG
Fluorescent primer for reverse transcription	/5–6FAM/AAAAAAAAAAAAAAAAAAAAGTTGTTGTTGTTGTTTCTTT