From: Transcriptome profiling of drought responsive noncoding RNAs and their target genes in rice
Gene ID | aRPKM | bLog2 Ratio | cMature miRNA/target sequence | dPARE sequence | PARE libraries | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
C | d1 | d2 | d3 | 1d/C | 2d/C | 3d/C | Â | Â | eA | fB | gC | hD | |
Inducible miRNAs/targets | |||||||||||||
 miR-399k | 119,291 | 99,410 | 1,530,906 | 3,519,097 | −0.26 | 3.68 | 4.88 | 3′-GCCCCGUUUAAAGGAAACCGU-5′ |  |  |  |  |  |
 Os05g0557700-01 | 25,889 | 23,611 | 8,802 | 9,104 | −0.13 | −1.56 | −1.51 | 737-CUGGGCAAAUCUCCUUUGGCA-757 | TCCTTTGGCAAAATACCTAT | 0 | 0 | 1 | 1 |
 miR-415 | 234,165 | 109,765 | 160,988 | 1,529,388 | −1.09 | −0.54 | 2.71 | 3′-GACGAGACGAAGACAAGACAA-5′ |  |  |  |  |  |
  Os04g0550200-01 | 9,337 | 2,36 | 1,749 | 273 | −1.98 | −2.42 | −5.10 | 789-UUACUCUGCUUCUGCUCUGUU-809 | CTGCTCTGTTCTCTTTCTTC | 0 | 0 | 0 | 1 |
  Os10g0500500-01 | 13,806 | 11,519 | 7,428 | 3,613 | −0.26 | −0.89 | −1.93 | 976-UGCUCUGCAUUUCUUCUGUU-995 | TTCTTCTGTTACTCATTCGA | 0 | 2 | 0 | 0 |
 miR-168a | 329,822 | 678,870 | 1,513,995 | 981,069 | 0.11 | 1.27 | 0.64 | 3′-AGGGCUAGACGUGGUUCGCU-5′ |  |  |  |  |  |
  Os02g0831600-01 | 5,715 | 5,283 | 1,584 | 687 | −0.11 | −1.85 | −3.06 | 446-UCCCGAGCUGCGCCAAGCAA-465 | CGCCAAGCAATAATGGAAGC | 0 | 0 | 2 | 7 |
  Os03g0687000-02 | 11,281 | 10,412 | 3,293 | 1,896 | −0.12 | −1.78 | −2.57 | 1807-UCAUGAUCUGCGCCAAGUGG-1826 | CGCCAAGTGGTACAGGTTCA | 0 | 0 | 0 | 1 |
  Os03g0687000-01 | 9,006 | 8,713 | 2,571 | 1,591 | −0.05 | −1.81 | −2.50 | 1905-UCAUGAUCUGCGCCAAGUGG-1924 | CGCCAAGTGGTACAGGTTCA | 0 | 0 | 0 | 1 |
 miR-821c | 27,730 | 47,537 | 376,336 | 364,452 | 0.78 | 3.76 | 3.72 | 3′-AGUUGAAAAAACAACUACUGAA-5′ |  |  |  |  |  |
  Os10g0412600-01 | 14,944 | 16,110 | 4,884 | 334 | 0.11 | −1.61 | −5.48 | 685-UGAACUUUUUUAUUGGUGAUUC-706 | TTGGTGATTCCCTCTAATGT | 0 | 0 | 0 | 1 |
 miR-171f-3p | 8,297 | 82,972 | 107,863 | 207,429 | 3.32 | 3.70 | 4.64 | 3′-CUAUAACCGUGCCGAGUUAGU-5′ |  |  |  |  |  |
  Os09g0555600-01 | 2,031 | 1,926 | 380 | 60 | −0.08 | −2.42 | −5.07 | 1488-GGUAUUGGCAUUGCUCAAUUA-1508 | TGCTCAATTATGGGCTAAAG | 0 | 0 | 0 | 1 |
 miR-816 | 150,534 | 95,795 | 301,069 | 136,849 | −0.65 | 1.00 | −0.14 | 3′-CAACAUCAUUUUAUACAGUG-5′ |  |  |  |  |  |
  Os01g0338100-00 | 1,722 | 1,227 | 701 | 534 | −0.49 | −1.30 | −1.69 | 277-AUUGUUGUAGAAUAUGUCAC-296 | AATATGTCACTGACCTGGTC | 0 | 0 | 0 | 1 |
 miR-166c-5p | 16,860 | 50,580 | 25,290 | 42,150 | 1.58 | 0.58 | 1.32 | 3′-GAGCCUGGUCUGUUGUAAGG-5′ |  |  |  |  |  |
  Os03g0823100-01 | 41,418 | 36,220 | 21,357 | 6,526 | −0.19 | −0.96 | −2.67 | 784-CUUGGACCAGCCAAUAUUUU-803 | CCAATATTTTCCTTCTATTT | 0 | 0 | 1 | 1 |
 miR-166c-3p | 16,860 | 50,580 | 25,290 | 42,150 | 1.58 | 0.58 | 1.32 | 3′-CCCUUACUUCGGACCAGGCU-5′ |  |  |  |  |  |
  Os12g0612700-01 | 667 | 751 | 573 | 121 | 0.17 | −0.22 | −2.47 | 874-UGGGAUGAAGCCUGGUCCGG-893 | CCTGGTCCGGATTCCATTGG | 0 | 0 | 53 | 73 |
 miR-167g | - | 25,701 | 89,953 | 12,850 | - | - | - | 3′-GUCUAGUACGACCGUCGAAGU-5′ |  |  |  |  |  |
 miR-167b | 6,465 |  | 19,394 | 12,929 | - - | 1.58 | 1.00 | 3′-UCUAGUACGACCGUCGAAGU-5′ |  |  |  |  |  |
  Os06g0129100-01 | 21,789 | 14,688 | 2,477 | 275 | −0.57 | −3.14 | −6.31 | 1085-UGUUCAUGCCGGCAGCUUCA-1104 | GGCAGCTTCAGGCTCCAGGT | 0 | 0 | 0 | 10 |
  Os07g0481400-01 | 10,354 | 8,139 | 4,789 | 1,387 | −0.35 | −1.11 | −2.90 | 2770-UAGAUCAUGCUGACAGCCUCA-2790 | GACAGCCTCAAAACAATTGA | 0 | 0 | 1 | 6 |
 miR-159b | 11,210 | 67,260 | 67,260 | - | 2.58 | 2.58 | - | 3′-GUCUCGAGGGAAGUUAGGUUU-5′ |  |  |  |  |  |
  Os06g0605600-01 | 3,381 | 3,623 | 4,557 | 934 | 0.10 | 0.43 | −1.86 | 403-UAGAGCUCCCUUCACUCCAAU-423 | TCACTCCAATATCCCAACTA | 0 | 3 | 0 | 16 |
  Os03g0683866-00 | 5,268 | 5,001 | 4,429 | 1,662 | −0.07 | −0.25 | −1.66 | 1320-UAAAGCUGCCUUCAGUCCAGA-1340 | TCAGTCCAGAATATGGGCTT | 0 | 0 | 0 | 1 |
 miR-159f | 5,605 | 11,210 | 28,025 | - | 1.00 | 2.32 | - - | 3′-AUCUCGAGGGAAGUUAGGUUC-5′ |  |  |  |  |  |
  Os06g0605600-01 | 3,381 | 3,623 | 4,557 | 934 | 0.10 | 0.43 | −1.86 | 403-UAGAGCUCCCUUCACUCCAAU-423 | TCACTCCAATATCCCAACTA | 0 | 3 | 0 | 16 |
 miR-169f | - | 6,198 | 43,389 | 198,351 | - - | - - | - - | 3′-AUCCGUUCAGUAGGAACCGAU-5′ |  |  |  |  |  |
  Os02g0776400-01 | 1,807 | 1,507 | 469, | 60 | −0.26 | −1.94 | −4.91 | 983-UAGGCAAUUCAUCCUUGGCUU-1003 | TCCTTGGCTTAAGTTTCATG | 6 | 5 | 6 | 66 |
  Os03g0411100-01 | 12,413 | 14,677 | 4,257 | 2,061 | 0.24 | −1.54 | −2.59 | 1242-UGGCAAUUCAUCCUUGGCUU-1261 | TCCTTGGCTTATGAAGTATC | 28 | 42 | 37 | 156 |
 miR-156i | - | - | 23,416 | 23,416 | - - | - - | - - | 3′-CACGAGUGAGAGAAGACAGU-5′ |  |  |  |  |  |
  Os06g0663500-00 | 3,829 | 3,070 | 3,323 | 867 | −0.32 | −0.20 | −2.14 | 749-GUGCUCUCUCUCUUCUGUCA-768 | TCTTCTGTCAGCTAGTTCAA | 0 | 5 | 1 | 35 |
  Os02g0174100-01 | 2,114 | 2,279 | 1,071 | 564 | 0.11 | −0.98 | −1.95 | 2221-GUGCUCUCUCUCUUCUGUCA-2240 | TCTTCTGTCATCTAGTTCTT | 0 | 2 | 0 | 11 |
  Os02g0139400-01 | 13,403 | 16,632 | 13,100 | 1,392 | 0.31 | −0.03 | −3.27 | 1869-AUGCUCUCUCUCUUCUGUCA-1888 | TCTTCTGTCAATCGATTCAG | 0 | 5 | 25 | 34 |
Repressible miRNAs / targets | |||||||||||||
 miR-530 | 1,433,087 | 241,496 | 231,823 | 84,299 | −1.77 | −2.63 | −4.09 | 3′-AUCCACGUCCACGUUUACGU-5′ |  |  |  |  |  |
  Os04g0603200-01 | 28,344 | 24,091 | 55,324 | 69,156 | −0.23 | 0.96 | 1.29 | 653-CAGAUGAAGGUGCAAAUGCA-672 | TGCAAATGCAGGAGCTGTAA | 0 | 0 | 0 | 1 |
  Os03g0296700-02 | 334 | 434 | 534 | 568 | 0.38 | 0.68 | 0.77 | 440-UGGAUGCUGGUGCAGAUGCA-459 | TGCAGATGCACCGTTCTGAT | 0 | 0 | 1 | 0 |
 miR-399e | 169,670 | 107,160 | 17,860 | 8,930 | −0.66 | −3.25 | −4.25 | 3′-CCCGUUUAGAGG-AAACCGU-5′ |  |  |  |  |  |
  Os04g0415000-01 | 5,599 | 8,625 | 25,400 | 18,132 | 0.62 | 2.18 | 1.70 | 491-GGGCAAUUCUCCGUUUGGCA-510 | CCGTTTGGCAGAAGATCAAC | 0 | 0 | 0 | 1 |
 miR-156f | 1,501,297 | 1,370,996 | 657,172 | 436,226 | −0.13 | −1.19 | −1.78 | 3′-CACGAGUGAGAGAAGACAGU-5′ |  |  |  |  |  |
 miR-156d | 1,070,078 | 1,159,932 | 1,110,921 | 130,697 | 0.12 | 0.05 | −3.03 | 3′-CACGAGUGAGAGAAGACAGU-5′ |  |  |  |  |  |
 miR-156g | 136,247 | 364,020 | 657,790 | 19,159 | 0.09 | −0.45 | −1.91 | 3′-CACGAGUGAGAGAAGACAGU-5′ |  |  |  |  |  |
 miR-156j | 351,247 | 364,020 | 657,790 | 19,159 | 0.05 | 0.91 | −4.20 | 3′-CACGAGUGAGAGAAGACAGU-5′ |  |  |  |  |  |
  Os01g0922600-01 | 1,610 | 2,024 | 20,929 | 4,295 | 0.33 | 3.70 | 1.42 | 620-GUGCUCUCUCUCUUCUGUCA-639 | TCTTCTGTCAGACAACCCCA | 0 | 0 | 2 | 19 |
  Os09g0507100-00 | 42 | 75 | 941 | 950 | 0.83 | 4.47 | 4.49 | 1034-GUGCUCUCUCUCUUCUGUCA-1053 | TCTTCTGTCATCCCCGGCCA | 0 | 0 | 2 | 1 |
 miR-815a | 25,391 | - | 12,696 | 12,696 | - | −1.00 | −1.00 | 3′-GGUUAGAGGAGUUAGGGGAA-5′ |  |  |  |  |  |
 miR-815c | 511,525 | 531,986 | 225,071 | 71,613 | 0.06 | −1.18 | −2.84 | 3′-GGUUAGAGGAGUUAGGGGAA-5′ |  |  |  |  |  |
  Os08g0465800-01 | 9,970 | 9,526 | 61,668 | 74,744 | −0.07 | 2.63 | 2.91 | 1896-CCAAUCUCCUUCCUCCUCUU-1915 | TCCTCCTCTTTTTAATCTCT | 0 | 0 | 0 | 1 |
 miR-159a | 395,153 | 360,286 | 96,851 | 65,859 | −0.13 | −2.03 | −2.58 | 3′-UCUCGAGGGAAGUUAGGUUU-5′ |  |  |  |  |  |
  Os03g0331700-02 | 7,076 | 3,394 | 22,641 | 50,780 | −1.06 | 1.68 | 2.84 | 1513-UGAGUUCCCUUCAUUCCAAA-1532 | TCATTCCAAAAGCTTAATTG | 0 | 0 | 0 | 1 |
 miR-393b | 151,675 | 175,623 | 127,726 | 31,932 | 0.21 | −0.25 | −2.25 | 3′-UAGUUACGCUAGGGAAACCU-5′ |  |  |  |  |  |
  Os05g0150500-00 | 5,537 | 4,773 | 20,300 | 36,796 | −0.21 | 1.87 | 2.27 | 1556-GACAAUGCGAUCCCUUUGGA-1575 | TCCCTTTGGATGTCGTCGTG | 16 | 18 | 88 | 655 |
 miR-528 | 227,512 | 287,384 | 23,949 | - | 0.34 | −3.25 | - | 3′-GAGGAGACGUACGGGGAAGGU-5′ |  |  |  |  |  |
  Os07g0570550-00 | 290 | 522 | 1,334 | 1,566 | 0.85 | 2.20 | 2.43 | 180-CUCCUCUGC-UGCCCCUUCCA-199 | GCCCCTTCCATGGCGCCCGC | 0 | 0 | 205 | 0 |
 miR-166d | 92,729 | 33,720 | 84,299 | 16,860 | −1.46 | −0.14 | −2.46 | 3′-CCCUUACUUCGGACCAGGCU-5′ |  |  |  |  |  |
  Os03g0640800-01 | 1,189 | 1,224 | 4,376 | 8,977 | 0.04 | 1.88 | 2.92 | 956-UGGGAUGAAGCCUGGUCCGG-975 | CCTGGTCCGGATTCCATTGG | 0 | 0 | 53 | 73 |
  Os10g0480200-02 | 1,638 | 1,282 | 2,956 | 3,158 | −0.35 | 0.85 | 0.95 | 922-UGGGAUGAAGCCUGGUCCGG-941 | CCTGGTCCGGATTCGTTTGG | 0 | 3 | 12 | 179 |