library_construction_protocol: Nuclear and cytoplasmic fractions were prepared from rosettes of 14-d plants adapting a previously described protocol based on differential centrifugation (Park et al., 2005). RNA was isolated from nuclear and cytoplasmic fractions using the RNeasy Plant Mini Kit (Qiagen). Additionally, the ERCC RNA Spike-In Mix (ambion) was added RNA-seq libraries were prepared using NuGEN Universal Plus RNA-Seq with NuQuant User Guide v3 (Tecan Genomics) in combination with Arabidopsis rRNA AnyDeplete module