Table 1.
miRNA Targets assembly with category ≤ 2 and raw reads ≥ 10 in at least one library.
| miRNA | Target | Cleavage Site (nt) | Category | Target Annotation | Response Type | Raw Reads in IRBB5 | Raw Reads in IR24 |
|---|---|---|---|---|---|---|---|
| osa-miR1425. | LOC_Os10g35436. | 1213 | 0 | Pentatricopeptide repeat protein 1 | Bacterium, fungus, innate immunity/ Jasmonic acid (JA) |
34 | 92 |
| LOC_Os10g35230 | 1192 | 0 | Pentatricopeptide repeat protein 2 | 10 | 13 | ||
| LOC_Os10g35240 | 1219 | 0 | Pentatricopeptide repeat protein 4 | 42 | 57 | ||
| osa-miR1426 | LOC_Os10g06130 | 829 | 0 | RNA recognition motif containing protein | Jasmonic acid (JA) | 13 | 12 |
| osa-miR1428 | LOC_Os03g17980 | 1228 | 0 | Serine/threonine protein kinase | 2 | 10 | |
| osa-miR1432 | LOC_Os03g59770 | 56 | 0 | calcium-binding protein CML21-like | 30 | 48 | |
| osa-miR1437 | LOC_Os01g22490 | 381 | 0 | Ubiquitin 5 | 13 | 9 | |
| osa-miR156 | LOC_Os06g45310 | 759 | 0 | Squamosa promoter binding-like 11 | 10 | 30 | |
| LOC_Os02g04680 | 1158 | 0 | Squamosa promoter binding-like 3 | 21 | 34 | ||
| LOC_Os08g41940 | 1008 | 0 | Squamosa promoter binding-like 16 | 9 | 7 | ||
| LOC_Os06g49010 | 1155 | 0 | Squamosa promoter binding-like 12 | 17 | 11 | ||
| osa-miR159 | LOC_Os01g59660 | 967 | 0 | GAMYB-like protein 1 | Gibberellin (GA) | 140 | 280 |
| LOC_Os12g10740 | 1018 | 0 | Leucine-rich repeat family protein | 2 | 10 | ||
| LOC_Os01g47530 | 1664 | 0 | Mitogen-activated protein kinase 20-4 | Basal defense | 7 | 31 | |
| LOC_Os06g40330 | 1429 | 0 | MYB transcription factor | 12 | 25 | ||
| osa-miR160 | LOC_Os02g41800 | 1340 | 0 | Auxin response factor 8 | 134 | 105 | |
| LOC_Os10g33940 | 1367 | 0 | Auxin response factor 16 | Auxin | 1212 | 1347 | |
| LOC_Os06g47150 | 1379 | 0 | Auxin response factor 18 | Auxin | 2407 | 2987 | |
| LOC_Os04g43910 | 1355 | 0 | Auxin response factor 10 | 48 | 59 | ||
| osa-miR162 | LOC_Os03g02970 | 2988 | 0 | Dicer-like protein 1 | 24 | 42 | |
| osa-miR164 | LOC_Os08g10080 | 697 | 2 | NAC transcription factor 104 | 17 | 2 | |
| LOC_Os04g38720 | 697 | 0 | NAC transcription factor 2 | Gibberellin (GA) | 29 | 7 | |
| LOC_Os12g41680 | 703 | 0 | NAC transcription factor 60 | Magnaporthe oryzae | 55 | 140 | |
| LOC_Os06g46270 | 679 | 0 | NAC transcription factor 11 | Auxin | 28 | 20 | |
| LOC_Os02g36880 | 787 | 0 | NAC transcription factor 1 | 72 | 47 | ||
| osa-miR166 | LOC_Os03g43930 | 622 | 0 | Homeobox-leucine zipper protein HOX32 | Auxin | 66 | 143 |
| LOC_Os12g41860 | 613 | 0 | Homeobox-leucine zipper protein HOX33 | Auxin | 66 | 142 | |
| LOC_Os03g01890 | 574 | 0 | Homeobox-leucine zipper protein HOX10 | Auxin | 266 | 277 | |
| LOC_Os10g33960 | 580 | 0 | Homeobox-leucine zipper protein HOX9 | Auxin | 267 | 278 | |
| osa-miR167 | LOC_Os04g57610 | 2312 | 0 | Auxin response factor 8 | Auxin | 22 | 8 |
| LOC_Os09g39420 | 2523 | 2 | WD40 repeat-like domain containing protein | 3 | 29 | ||
| osa-miR168 | LOC_Os02g45070 | 427 | 2 | Protein argonaute 1A | Virus, innate immunity/Auxin | 31 | 34 |
| LOC_Os04g47870 | 535 | 2 | Protein argonaute 1B | Virus, innate immunity /Auxin | 6 | 19 | |
| osa-miR171 | LOC_Os06g01620 | 452 | 0 | GRAS plant-specific transcription factor | 354 | 367 | |
| LOC_Os04g46860 | 1130 | 0 | GRAS plant-specific transcription factor | 206 | 328 | ||
| LOC_Os02g44370 | 1139 | 0 | GRAS plant-specific transcription factor | 80 | 75 | ||
| LOC_Os02g44360 | 1121 | 0 | GRAS plant-specific transcription factor | 73 | 73 | ||
| osa-miR172 | LOC_Os05g03040 | 1423 | 2 | AP2/EREBP transcription factor | Ethylene (ETH) | 1728 | 1728 |
| LOC_Os07g13170 | 1207 | 0 | AP2 transcription factor | 21 | 43 | ||
| osa-miR1846 | LOC_Os03g55010 | 1219 | 0 | UDP-glucosyltransferase family protein | 6 | 10 | |
| LOC_Os03g55030 | 1213 | 0 | UDP-glucosyltransferase family protein | 6 | 10 | ||
| osa-miR2093 | LOC_Os09g06499 | 1549 | 2 | Sulfate transporter 4.1 | 18 | 10 | |
| osa-miR2094 | LOC_Os08g14440 | 506 | 2 | Uridylyltransferase-related | Cytokinin (CTK) | 26 | 14 |
| osa-miR2100 | LOC_Os05g27940 | 250 | 2 | Ribosomal protein S7 | 7 | 11 | |
| osa-miR2102 | LOC_Os03g46570 | 902 | 2 | SKIPa-interacting protein 31 | Bacterium, fungus/ Gibberellin (GA) |
11 | 3 |
| LOC_Os09g34140 | 183 | 2 | Conserved hypothetical protein | 17 | 12 | ||
| osa-miR2925 | LOC_Os07g25430 | 235 | 2 | Photosystem I reaction center subunit IV, chloroplast precursor | Cytokinin (CTK) | 42 | 21 |
| LOC_Os01g45470 | 82 | 2 | Conserved hypothetical protein | 32 | 34 | ||
| osa-miR2926 | LOC_Os10g35840 | 1175 | 2 | Glutamyl-tRNA reductase 2 | 31 | 22 | |
| osa-miR393 | LOC_Os05g05800 | 1552 | 2 | F-Box auxin receptor protein | Defense response/ Auxin, Ethylene (ETH) |
66 | 102 |
| LOC_Os04g32460 | 1513 | 2 | Auxin signaling F-box 2 | Defense response/Auxin | 23 | 20 | |
| osa-miR394 | LOC_Os01g69940 | 1093 | 2 | Cyclin-like F-box domain containing protein | Auxin | 165 | 169 |
| osa-miR396 | LOC_Os06g02560 | 410 | 2 | Growth-regulating factor 5 | 62 | 55 | |
| LOC_Os11g35030 | 593 | 0 | Growth regulating factor protein 8 | Gibberellin (GA) | 31 | 27 | |
| LOC_Os04g51190 | 461 | 2 | Growth-regulating factor 3 | Gibberellin (GA) | 18 | 13 | |
| LOC_Os03g47140 | 572 | 2 | Growth regulating factor protein 9 | 70 | 105 | ||
| osa-miR399 | LOC_Os04g55230 | 3898 | 2 | Tetratricopeptide repeat protein | Abscisic Acid (ABA) | 7 | 22 |
| LOC_Os09g39180 | 731 | 2 | Similar to Nucleic acid-binding protein precursor | Innate immunity Abscisic Acid (ABA) | 10 | 17 | |
| osa-miR414 | LOC_Os08g33370 | 725 | 2 | G-box factor 14-3-3 protein |
Xoo, Magnaporthe oryzae/ Jasmonic acid (JA), Ethylene (ETH), Abscisic Acid (ABA) |
1 | 11 |
| osa-miR444 | LOC_Os02g49840 | 290 | 2 | MADS-box transcription factor 57 | 147 | 211 | |
| osa-miR528 | LOC_Os09g20090 | 32 | 2 | Ascorbate oxidase | Antiviral defence/ Salicylic Acid (SA) |
3 | 23 |
| LOC_Os07g38290 | 538 | 2 | Cupredoxin domain containing protein | 837 | 1780 | ||
| LOC_Os08g36420 | 80 | 2 | Zinc/iron permease family protein | 8 | 14 | ||
| osa-miR530-5p | LOC_Os04g51400 | 510 | 2 | RING finger protein with microtubule-targeting domain 1 | 605 | 1107 | |
| osa-miR5809 | LOC_Os12g25180 | 403 | 2 | Hypothetical conserved gene | 29 | 35 | |
| novel_mir112 | LOC_Os10g41590 | 1206 | 2 | Flowering-Related RING Protein 1 | Innate immunity | 5 | 16 |
| novel_mir89 | LOC_Os02g04680 | 1156 | 0 | Squamosa promoter binding-like 3 | 77 | 36 | |
| LOC_Os06g45310 | 760 | 0 | Squamosa promoter binding-like 11 | 14 | 41 | ||
| novel_mir115 | LOC_Os03g39610 | 743 | 0 | chlorophyll A-B binding protein | Reactive oxygen species Biosynthesis/ Abscisic Acid (ABA) |
85 | 70 |
| LOC_Os02g10390 | 706 | 0 | chlorophyll A-B binding protein | Cytokinin (CTK) | 61 | 59 | |
| LOC_Os01g52240 | 749 | 2 | chlorophyll A-B binding protein | 3158 | 4197 |