Fig. 1

Gene expression in BA-treated and mock-treated rice seedlings. a RNA-Seq coverage graphs from chromosome 1 showing mock-treated rice root and shoots. Graphs in the different tracks use the same y-axis scale, and peaks represent regions of high expression. The region in view includes the following genes: 1) LOC_Os01g72170^DE; 2) LOC_Os01g72190; 3) LOC_Os01g72200; 4) LOC_Os01g72205 ^DE; 5) LOC_Os01g72210 ^DE; 6) LOC_Os01g72220; 7) LOC_Os01g72230; 8) LOC_Os01g72240; 9) LOC_Os01g72250; 10) LOC_Os01g72260^DE; 11) LOC_Os01g72270^DE; 12) LOC_Os01g72280^DE; 13) LOC_Os01g72290^DE; where (^DE) indicates genes that are differentially expressed between roots and shoots. b Expression in BA-treated samples in log₂ of RPKM compared to mock-treated samples in roots (left) and shoots (right). c Venn diagram showing the number of genes up or down-regulated in roots and shoots. d Plot showing log₂ fold change in roots versus shoots for genes that were differentially regulated by BA treatment in both tissues. Data points in the upper right and lower left quadrants represent genes that were changed in the same direction in both shoots and roots. Blue data points indicate type-A RRs