Table 3.
Representative pathway genes
| Pathways | Representative genes | Transcript | S0_S6 | S0_S48 | R0_R6 | R0_R48 |
|---|---|---|---|---|---|---|
| Ethylene | ACO | LOC_Os02g53180.1 | - | U | - | - |
| ERF | LOC_Os02g43790.1 | - | U | - | - | |
| Jasmonate | LOX | LOC_Os08g39850.1 | - | U | - | - |
| AOS2 | LOC_Os03g12500.1 | - | U | - | - | |
| OPR1 | LOC_Os06g11210.1 | - | U | - | - | |
| Salicylic acid | SAMT | LOC_Os11g15040.1 | U | U | - | U |
| Receptor kinase | Receptor-like protein kinase 5 | LOC_Os02g13510.1 | - | U | - | U |
| BAK1 | LOC_Os03g32580.1 | - | U | - | - | |
| XA21 | LOC_Os11g36180.1 | - | - | - | U | |
| MAP kinase | MAPK | LOC_Os03g17700.1 | - | U | - | - |
| Ca2+ signaling | OsCML15 | LOC_Os05g31620.1 | - | U | - | - |
| Calmodulin-binding protein | LOC_Os12g36910.1 | - | U | - | U | |
| Biotic stress | PR1a | LOC_Os07g03710.1 | - | U | - | - |
| PR1b | LOC_Os01g28450.1 | - | U | - | U | |
| PR3 | LOC_Os03g30470.1 | - | U | - | - | |
| PR4b | LOC_Os11g37960.1 | - | U | - | - | |
| PR9 | LOC_Os07g48020.1 | - | U | - | U | |
| PR10 | LOC_Os12g36880.1 | - | U | U | U | |
| Wounding | WI12 | LOC_Os03g18770.1 | U | - | - | - |
| TF | EREBP | LOC_Os03g08500.1 | - | U | - | - |
| Basic helix–loop–helix protein | LOC_Os09g31300.1 | - | U | - | U | |
| C2H2 zinc finger protein | LOC_Os05g37190.1 | - | U | - | U | |
| C3H zinc finger protein | LOC_Os07g38090.1 | - | - | - | - | |
| WRKY domain TF | LOC_Os01g14440.1 | - | U | - | - | |
| Pr. synthesis | tRNA synthetase | LOC_Os01g54020.2 | - | D | - | - |
| 40S ribosomal protein | LOC_Os03g18570.1 | - | D | - | - | |
| 60S ribosomal protein | LOC_Os05g06310.1 | - | D | - | - | |
| Translation initiation factor | LOC_Os05g49970.2 | - | D | - | - | |
| Pr. targeting | Mitochondrial import translocase | LOC_Os02g48610.2 | - | D | - | - |
| Pr. folding | Chaperonin | LOC_Os06g09679.1 | - | D | - | D |
| Pr. degradation | Ubiquitin family protein | LOC_Os02g06640.1 | - | U | - | - |
| OsFBL7 | LOC_Os02g10700.1 | U | U | - | - | |
| Pr. modification | Protein phosphatase | LOC_Os02g13100.1 | - | U | - | - |
| Calcium-dependent protein kinases | LOC_Os07g05620.2 | - | U | - | U | |
| CRK5 | LOC_Os04g56430.1 | - | U | - | - | |
| CRK6 | LOC_Os03g16960.1 | - | U | - | - | |
| Serine/threonine protein kinase | LOC_Os02g01730.1 | - | U | - | - | |
| Trypsin inhibitor | BBTI5 | LOC_Os01g03360.1 | U | U | U | - |
| Glucosidase | GNS1 | LOC_Os05g31140.1 | - | U | - | - |
| GNS4 | LOC_Os01g71670.1 | - | U | - | U | |
| GNS5 | LOC_Os01g71340.1 | - | U | - | U | |
| PS light reaction | PS I reaction center subunit | LOC_Os03g56670.1 | - | D | - | - |
| PS II reaction center protein | LOC_Os01g71190.1 | D | D | - | D | |
| ATP synthase | LOC_Os07g32880.1 | - | D | - | - | |
| PS Calvin cycle | Ribulose bisphosphate carboxylase | LOC_Os12g17600.1 | - | D | - | - |
| Tetrapyrrole | Aminolevulinic acid dehydratase | LOC_Os06g49110.1 | - | D | - | - |
| CHO synthesis | Starch synthase | LOC_Os04g53310.1 | D | - | D | - |
| CHO degradation | β-amylase | LOC_Os03g22790.1 | U | U | U | - |
| Lipid synthesis | Acetyl-CoA carboxylase | LOC_Os05g22940.1 | - | D | - | - |
| Glycerol-3-phosphate acyltransferase | LOC_Os01g63580.1 | - | D | - | - | |
| TCA | Citrate synthase | LOC_Os01g19450.1 | - | D | - | - |