Fig. 3

Cryptic unstable transcripts (CUTs) and stable unannotated transcripts (SUTs). a Heat map of fragments per kilobase per million reads (FPKM) at log2 scale for 887 CUTs at 1.5 min, 2.5 min, 5.0 min and steady state (SS). The hierarchical clustering is based on complete similarity between the FPKMs of two CUTs at the four time points. b The same heat map for 823 SUTs. c Comparison between log2 FPKM of 887 CUTs and 823 SUTs at 1.5 min, 2.5 min, 5.0 min and steady state. The levels of CUTs and SUTs are similar at initial time points but significantly different at steady states. d FPKM changes for three example CUTs measured by RNA-seq. e Levels of the same three CUTs relative to steady state, measured by reverse transcription quantitative polymerase chain reaction (RT-qPCR). 4tU 4-thiouracil