Ultra short and progressive 4sU-tagging reveals key characteristics of RNA processing at nucleotide resolution

ABSTRACT: RNA synthesis and decay rates determine the steady-state levels of cellular RNAs. Metabolic tagging of newly transcribed RNA by 4-thiouridine (4sU) can reveal the relative contributions of RNA synthesis and decay rates. The kinetics of RNA processing, however, so far remained unresolved. Here, we show that ultra-short 4sU-tagging not only provides snap-shot pictures of eukaryotic gene expression but, when combined with progressive 4sU-tagging and RNA-seq, reveals global RNA processing kinetics at nucleotide resolution. Using this method, we identified classes of rapidly and slowly spliced/degraded introns. Interestingly, each class of splicing kinetics was characterized by a distinct association with intron length, gene length and splice site strength. For a large group of introns, we also

ORGANISM(S): Homo sapiens

SUBMITTER: Caroline Friedel 

PROVIDER: E-GEOD-31653 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress