RNA-Seq of bzr1-1D replicate 1 Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome Build:B_L1.count.txt: Arabidopsis TAIR9
RNA-Seq of bzr1-1D replicate 1 Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome Build:B_L1.count.txt: Arabidopsis TAIR9
RNA-Seq of Col-0 replicate 2 Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome Build:C_L2.count.txt: Arabidopsis TAIR9
RNA-Seq of pifq;bzr1-1D replicate 2 Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome Build:QB_L2.count.txt: Arabidopsis TAIR9
RNA-Seq of Col-0 + BR replicate 2 Basecalls performed using CASAVA version 1.?Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome_build: TAIR9
Chromatin IP against GFP transcription factor ARF6 binding peaks were identified using ChIP-Seq analysis R (CSAR) software with parameters (backg=10, norm=-1, test="Ratio", times=1e6, digits=2) (Muino et al., 2011)Genome_build: TAIR9
RNA-Seq of pifq;bzr1-1D replicate 1 Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome Build:QB_L1.count.txt: Arabidopsis TAIR9
RNA-Seq of pifq replicate 1 Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome Build:Q_L1.count.txt: Arabidopsis TAIR9
RNA-Seq of Col-0 + BR replicate 1 Basecalls performed using CASAVA version 1.?Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome_build: TAIR9
RNA-Seq of iaa3 + BR replicate 2 Basecalls performed using CASAVA version 1.?Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.Genome_build: TAIR9