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. 2014 Jun;20(6):882–898. doi: 10.1261/rna.041822.113

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© 2014 Wu et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society

This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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FIGURE 2. — TSS annotation and 5′ UTRs. (A) 5′ UTR lengths. Frequency of individual 5′ UTR lengths based on 647 TSSs (primary and secondary) of mRNAs. (B) Promoter motif. Motif searches upstream of SS TSSs revealed extended Pribnow boxes (−10 signal: tgnTAtaAT), of which 589/647 (∼91%) were primary and secondary (top, histogram of distribution; bottom, logo of upstream TSS sequences). The dotted line indicates the upstream periodic AT-stretch signal. (C) Re-annotation of the SSU0647 gene prompted by a newly discovered TSS downstream from its originally annotated start codon. (Upper) The alignment of protein sequences of Streptococcus strains (Supplemental Table S2). (Lower) Reads of PC+/PC− libraries mapping to the operon SSU0647-SSU0645 are shown. The highly conserved re-annotated new AUG and −10 box of the new TSS are shown.