| SRR5560727 | caryopsis | wild_type | 0.77 | MC |
| SRR5560728 | caryopsis | wild_type | 0.76 | MC |
| SRR5560729 | caryopsis | wild_type | 3.05 | MC |
| SRR3015587 | coleoptile | wild_type_plus_1hr_shade | 1.10 | MC |
| SRR3015588 | coleoptile | wild_type_plus_1hr_shade | 0.76 | MC |
| SRR3015589 | coleoptile | wild_type_plus_1hr_white_light | 1.66 | MC |
| SRR7265402 | coleoptile | 2dA | 0.40 | MC |
| SRR7265405 | coleoptile | 2dN | 0.34 | MC |
| SRR7265406 | coleoptile | 3dA | 0.38 | MC |
| SRR7265412 | coleoptile | 4dA | 0.43 | MC |
| SRR7265418 | coleoptile | 3dN1dA | 0.83 | MC |
| SRR7265420 | coleoptile | 3dN1dA | 0.44 | MC |
| SRR4104639 | crown | "Zn_deficiency,8_days_of_treatment" | 0.42 | MC |
| SRR4104637 | crown | "Zn_deficiency,8_days_of_treatment" | 0.79 | MC |
| SRR4104638 | crown | "Zn_deficiency,8_days_of_treatment" | 0.58 | MC |
| SRR4104640 | crown | "Zn_deficiency,8_days_of_treatment" | 0.55 | MC |
| SRR4104641 | crown | "Zn_deficiency,8_days_of_treatment" | 0.66 | MC |
| SRR4104642 | crown | "Zn_deficiency,8_days_of_treatment" | 0.36 | MC |
| SRR4104643 | crown | "Zn_Efficient,8_days_of_treatment" | 0.65 | MC |
| SRR7265374 | embryo | dry seed 0 h | 2.84 | MC |
| SRR7265375 | embryo | dry seed 0 h | 1.26 | MC |
| SRR7265382 | embryo | 3hA | 3.00 | MC |
| SRR7265384 | embryo | 3hA | 3.26 | MC |
| SRR7265385 | embryo | 3hN | 2.42 | MC |
| SRR7265386 | embryo | 3hN | 3.19 | MC |
| SRR7265387 | embryo | 3hN | 2.65 | MC |
| SRR7265388 | embryo | 12hA | 0.50 | MC |
| SRR7265389 | embryo | 12hA | 0.65 | MC |
| SRR7265390 | embryo | 12hA | 0.47 | MC |
| SRR7265393 | embryo | 12hN | 0.61 | MC |
| SRR1213690 | flower | wt(flower buds) | 0.92 | MC |
| SRR1213691 | flower | wt | 1.01 | MC |
| SRR8060836 | leaf | wild_type | 2.94 | MC |
| SRR8240824 | leaf | wild_type | 0.54 | MC |
| SRR8240826 | leaf | wild_type | 1.00 | MC |
| SRR8240818 | leaf | wild_type | 0.50 | MC |
| SRR8240819 | leaf | wild_type | 0.44 | MC |
| SRR8240820 | leaf | wild_type | 0.29 | MC |
| SRR3015594 | leaf | wild_type_plus_1hr_shade | 0.59 | MC |
| SRR1952781 | leaf | 48_hrs_after_inoculation_with_BLS279 | 0.39 | MC |
| SRR1952783 | leaf | 48_hrs_after_inoculation_with_BLS279 | 0.37 | MC |
| SRR1952786 | leaf | 48_hrs_after_inoculation_with_CFBP2286 | 0.61 | MC |
| SRR1952787 | leaf | 48_hrs_after_inoculation_with_B8_12 | 0.84 | MC |
| SRR1952788 | leaf | 48_hrs_after_inoculation_with_B8_12 | 0.48 | MC |
| SRR1952789 | leaf | 48_hrs_after_inoculation_with_B8_12 | 0.53 | MC |
| SRR1952792 | leaf | 48_hrs_after_inoculation_with_L8 | 0.78 | MC |
| SRR1952793 | leaf | 48_hrs_after_inoculation_with_RS105 | 0.45 | MC |
| SRR1952801 | leaf | 48_hrs_after_inoculation_with_CFBP7331 | 0.52 | MC |
| SRR1952805 | leaf | 48_hrs_after_inoculation_with_CFBP7342 | 0.56 | MC |
| SRR1952810 | leaf | 48_hrs_after_mock_inoculation | 0.67 | MC |
| SRR1761788 | leaf | "wild_type,drought,2" | 4.54 | MC |
| SRR1761780 | leaf | "wild_type,drought,1" | 4.54 | MC |
| SRR1761528 | leaf | drought | 4.54 | MC |
| SRR6417964 | leaf | Xanthomonas_oryzae_pv._Oryzae_MAI1_inoculated_24hpi | 0.58 | MC |
| SRR6417965 | leaf | Xanthomonas_oryzae_pv._Oryzae_MAI1_inoculated_24hpi | 0.43 | MC |
| SRR3209769 | leaf | Watered;Long_Day | 0.60 | MC |
| SRR3209770 | leaf | Watered;Long_Day | 0.41 | MC |
| SRR3209771 | leaf | Drought;Long_Day | 1.36 | MC |
| SRR3209772 | leaf | Drought;Long_Day | 1.38 | MC |
| SRR3209775 | leaf | Drought;Short_Day | 2.40 | MC |
| SRR3209777 | leaf | Watered;Long_Day | 0.81 | MC |
| SRR3209778 | leaf | Drought;Long_Day | 1.26 | MC |
| SRR3209780 | leaf | Drought;Short_Day | 1.33 | MC |
| SRR8611900 | leaf | Non-inoculated | 2.69 | MC |
| SRR8611901 | leaf | Non-inoculated | 1.22 | MC |
| SRR8611902 | leaf | Non-inoculated | 1.19 | MC |
| SRR6216698 | leaf | nontransgenic rice plant | 0.64 | MC |
| SRR6216699 | leaf | nontransgenic rice plant | 1.52 | MC |
| SRR1213692 | leaf | wt | 3.57 | MC |
| SRR1213693 | leaf | wt | 0.84 | MC |
| SRR6502085 | leaf | 100 mM NaCl | 2.54 | MC |
| SRR6502086 | leaf | 100 mM NaCl | 1.39 | MC |
| SRR6502087 | leaf | 100 mM NaCl | 0.78 | MC |
| SRR6502090 | leaf | control | 1.73 | MC |
| SRR6502097 | leaf | 100 mM NaCl | 3.83 | MC |
| SRR6502098 | leaf | 100 mM NaCl | 2.03 | MC |
| SRR6502100 | leaf | control | 1.25 | MC |
| SRR6502101 | leaf | control | 1.64 | MC |
| SRR5856927 | leaf | control | 0.28 | MC |
| SRR5856929 | leaf | control | 0.40 | MC |
| SRR5856933 | leaf | control | 0.68 | MC |
| SRR5856934 | leaf | control | 0.25 | MC |
| SRR5856935 | leaf | control | 0.75 | MC |
| SRR6053399 | leaf | Paclobutrazol (PB) | 1.76 | MC |
| SRR6168974 | leaf | none (control) | 0.62 | MC |
| SRR6168975 | leaf | none (control) | 1.70 | MC |
| SRR6168980 | leaf | none (control) | 0.72 | MC |
| SRR6168981 | leaf | none (control) | 0.64 | MC |
| SRR6168982 | leaf | 0.5% Na2CO3 solution for 36h | 0.74 | MC |
| SRR6168983 | leaf | 0.5% Na2CO3 solution for 36h | 1.03 | MC |
| SRR6168984 | leaf | 0.5% Na2CO3 solution for 36h | 0.40 | MC |
| SRR8582891 | panicle | PM | 0.47 | MC |
| SRR8582893 | panicle | PM | 0.27 | MC |
| SRR5110429 | panicle | Dawn | 0.37 | MC |
| SRR5110431 | panicle | Dawn | 0.57 | MC |
| SRR4947496 | root | control | 1.60 | MC |
| SRR5110435 | panicle | Dawn + 3.5h | 0.98 | MC |
| SRR5110440 | panicle | Dawn + 7h | 1.31 | MC |
| SRR5110443 | panicle | Dawn + 10.5h | 0.33 | MC |
| SRR5110446 | panicle | Dusk | 0.34 | MC |
| SRR5110451 | panicle | Dawn + 14h | 0.65 | MC |
| SRR5110453 | panicle | Dawn + 17.5h | 1.45 | MC |
| SRR5110457 | panicle | Dawn + 21h | 0.90 | MC |
| SRR5110458 | panicle | Dawn + 21h | 0.84 | MC |
| SRR5110460 | panicle | Dawn + 21h | 0.82 | MC |
| SRR1213696 | endosprem | wt(milk grains) | 0.39 | MC |
| SRR1213697 | endosprem | wt(mature seeds) | 0.83 | MC |
| SRR5278374 | pistil | "Balilla,S1" | 1.73 | MC |
| SRR5278375 | pistil | "Balilla,S1" | 2.00 | MC |
| SRR5278376 | pistil | "Balilla,S2" | 3.35 | MC |
| SRR5278377 | pistil | "Balilla,S2" | 3.26 | MC |
| SRR5278378 | pistil | "Balilla,S3" | 4.16 | MC |
| SRR5278379 | pistil | "Balilla,S3" | 2.90 | MC |
| SRR5126147 | root | "mock,1_day" | 1.39 | MC |
| SRR5126148 | root | "mock,1_day" | 0.51 | MC |
| SRR5126149 | root | "mock,1_day" | 0.46 | MC |
| SRR5126151 | root | "auxin(50CM_2,4_D),1_day" | 0.43 | MC |
| SRR5126152 | root | "auxin(50CM_2,4_D),1_day" | 0.33 | MC |
| SRR5126155 | root | "mock,7_days" | 0.46 | MC |
| SRR5126163 | root | "auxin(50CM_2,4_D),7_days" | 0.85 | MC |
| SRR5126169 | root | "mock,14_days" | 0.39 | MC |
| SRR5126171 | root | "auxin(50CM_2,4_D),14_days" | 0.35 | MC |
| SRR5126173 | root | "auxin(50CM_2,4_D),14_days" | 0.55 | MC |
| SRR3472897 | root | nontransgenic_rice_plant | 0.37 | MC |
| SRR1213694 | root | wt | 1.51 | MC |
| SRR1213695 | root | wt | 0.75 | MC |
| SRR4947478 | root | control | 2.23 | MC |
| SRR4947479 | root | control | 2.49 | MC |
| SRR4947480 | root | control | 0.96 | MC |
| SRR4947483 | root | Al | 2.47 | MC |
| SRR4947484 | root | Al | 2.52 | MC |
| SRR4947487 | root | control | 3.12 | MC |
| SRR4947488 | root | control | 1.95 | MC |
| SRR4947489 | root | control | 0.92 | MC |
| SRR4947490 | root | Al | 1.42 | MC |
| SRR4947491 | root | Al | 2.87 | MC |
| SRR4947492 | root | Al | 1.69 | MC |
| SRR4947493 | root | Al | 0.94 | MC |
| SRR4947494 | root | control | 2.90 | MC |
| SRR4947497 | root | control | 0.80 | MC |
| SRR4947498 | root | Al | 4.24 | MC |
| SRR4947499 | root | Al | 4.36 | MC |
| SRR4947500 | root | Al | 2.25 | MC |
| SRR4947501 | root | Al | 2.39 | MC |
| SRR4947502 | root | control | 3.87 | MC |
| SRR4947503 | root | control | 4.22 | MC |
| SRR4947504 | root | control | 1.53 | MC |
| SRR4947505 | root | control | 2.26 | MC |
| SRR4947507 | root | Al | 3.51 | MC |
| SRR4947508 | root | Al | 1.12 | MC |
| SRR4947509 | root | Al | 0.54 | MC |
| SRR6502091 | root | 100 mM NaCl | 1.13 | MC |
| SRR6502092 | root | 100 mM NaCl | 1.46 | MC |
| SRR6502094 | root | control | 2.24 | MC |
| SRR6502095 | root | control | 0.80 | MC |
| SRR6502096 | root | control | 1.34 | MC |
| SRR6502103 | root | 100 mM NaCl | 1.89 | MC |
| SRR6502104 | root | 100 mM NaCl | 2.60 | MC |
| SRR6502105 | root | 100 mM NaCl | 2.64 | MC |
| SRR6502108 | root | control | 1.15 | MC |
| SRR1740434 | root_differentiation_zone | wt | 2.97 | MC |
| SRR1740435 | root_differentiation_zone | wt | 0.87 | MC |
| SRR6441554 | seedling | wild_type | 1.37 | MC |
| SRR2154082 | seedling | wt | 0.99 | MC |
| SRR2154083 | seedling | wt | 2.26 | MC |
| SRR2154084 | seedling | wt | 0.55 | MC |
| SRR3098741 | seedling | wt | 0.37 | MC |
| SRR3098742 | seedling | wt | 0.16 | MC |
| SRR3098743 | seedling | wt | 0.20 | MC |
| SRR2857720 | seedling | drought_stress_1h | 0.58 | MC |
| SRR1944583 | seedling | no_treatment | 0.91 | MC |
| SRR1288364 | shoot | "none,3_days_post_infection" | 3.63 | MC |
| SRR1288365 | shoot | "none,7_days_post_infection" | 3.84 | MC |
| SRR1288366 | shoot | "none,7_days_post_infection" | 4.94 | MC |
| SRR1288368 | shoot | "roots_rot_nematode_(H._oryzae),3_days_post_infection" | 11.81 | MC |
| SRR1288370 | shoot | "roots_rot_nematode_(H._oryzae),7_days_post_infection" | 4.49 | MC |
| SRR4841740 | shoot | shoots_of_Meloidogyne_graminicola_infected_3_dai | 5.28 | MC |
| SRR4841741 | shoot | shoots_of_Meloidogyne_graminicola_infected_3_dai | 2.26 | MC |
| SRR3950244 | shoot | Drought_during_3_days;Fr13_inoculated | 0.55 | MC |
| SRR3950245 | shoot | Drought_during_3_days;Fr13_inoculated | 0.70 | MC |
| SRR3950246 | shoot | Drought_during_3_days;Fr13_inoculated | 0.67 | MC |
| SRR3950248 | shoot | No_DIS;Fr13_inoculated | 0.23 | MC |
| SRR3950249 | shoot | No_DIS;Fr13_inoculated | 0.16 | MC |
| SRR3950250 | shoot | Drought_during_3_days;_mock_inoculated | 0.50 | MC |
| SRR5796940 | shoot | "Control,22C for 10 min" | 2.71 | MC |
| SRR5796941 | shoot | "Control,22C for 10 min" | 3.12 | MC |
| SRR5796944 | shoot | "Control, 22C for 10 min, then 30C for 50 min" | 2.89 | MC |
| SRR5796946 | shoot | "Control,22C for 10 min, then 30C for 1h50 min" | 3.51 | MC |
| SRR5796947 | shoot | "Control,22C for 10 min, then 30C for 1h50 min" | 2.16 | MC |
| SRR5796949 | shoot | "Control,22C for 10 min, then 30C for 9h50 min" | 0.47 | MC |
| SRR5796956 | shoot | "Heat,42C for 10 min, then 30C for 1h50 min" | 1.90 | MC |
| SRR5796957 | shoot | "Heat,42C for 10 min, then 30C for 1h50 min" | 2.35 | MC |
| SRR3129121 | spikelet | Wild_type_9522_S3 | 0.68 | MC |
| SRR3129122 | spikelet | Wild_type_9522_S3 | 0.66 | MC |
| SRR3129123 | spikelet | Wild_type_9522_S3 | 0.51 | MC |
| SRR3129124 | spikelet | Wild_type_9522_S5 | 2.22 | MC |
| SRR3129125 | spikelet | Wild_type_9522_S5 | 2.49 | MC |
| SRR3129126 | spikelet | Wild_type_9522_S5 | 2.72 | MC |
| SRR3129127 | spikelet | Wild_type_9522_S7 | 1.88 | MC |
| SRR3129128 | spikelet | Wild_type_9522_S7 | 2.35 | MC |
| SRR3129129 | spikelet | Wild_type_9522_S7 | 4.41 | MC |
| SRR7760291 | spikelet | control condition (29C) for 7 hrs | 1.20 | MC |
| SRR7760292 | spikelet | control condition (29C) for 7 hrs | 1.00 | MC |
| SRR7760293 | spikelet | control condition (29C) for 7 hrs | 0.81 | MC |
| SRR7760294 | spikelet | high temperature treatment (38C) for 7 hrs | 1.31 | MC |
| SRR7760296 | spikelet | high temperature treatment (38C) for 7 hrs | 0.55 | MC |
| SRR7760297 | spikelet | control condition (29C) for 7 hrs | 1.43 | MC |
| SRR7760298 | spikelet | control condition (29C) for 7 hrs | 0.38 | MC |
| SRR7760299 | spikelet | control condition (29C) for 7 hrs | 1.31 | MC |
| SRR7760300 | spikelet | high temperature treatment (38C) for 7 hrs | 0.36 | MC |
| SRR7760301 | spikelet | high temperature treatment (38C) for 7 hrs | 0.40 | MC |
| SRR7760302 | spikelet | high temperature treatment (38C) for 7 hrs | 0.27 | MC |