Table 3 Conserved soybean miRNAs in four small RNA libraries
miRNA | Sequence (5’ to 3’) | Size (nt) | Ch | Start:end (+/-) | Arm | TPM in HPL | TPM in LPL | TPM in HPR | TPM in LPR | Registered in |
|---|---|---|---|---|---|---|---|---|---|---|
| Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | miRBase or not |
miR156d | TTGACAGAAGATAGAGAGCAC | 21 | 8 | 3891352:3891504:+ | 5 | 34857 | 30879 | 18368 | 15715 | Yes |
miR156h | TGACAGAAGAGAGTGAGCAC | 20 | 4 | 4990842:4990964: − | 5 | 66744 | 55303 | 22303 | 26339 | Yes |
miR156o | TTGACAGAAGAGAGTGAGCAC | 21 | 17 | 37759430:37759553:+ | 5 | 1749 | 1579 | 1271 | 998 | Yes |
miR156p | ACAGAAGATAGAGAGCACAG | 20 | 7 | 9347129:9347272:+ | 5 | 46 | 47 | 94 | 131 | No |
miR156q | TGACAGAAGATAGAGAGCAC | 20 | 19 | 8895390:8895494:+ | 5 | 483 | 526 | 403 | 452 | No |
miR156r | TGACAGAAGAGAGTGAGCACT | 21 | 13 | 20521462:20521566:+ | 5 | 75 | 57 | 159 | 206 | No |
miR156s | TGACAGAAGAGAGTGAGCACT | 21 | 17 | 4291649:4291772: − | 5 | 75 | 57 | 159 | 206 | No |
miR156t | TGACAGAAGAGAGTGAGCACA | 21 | 2 | 41864154:41864278:+ | 5 | 173 | 156 | 99 | 108 | No |
miR156u | TGACAGAAGAGAGTGAGCACA | 21 | 4 | 4257047:4257175:+ | 5 | 173 | 156 | 99 | 108 | No |
miR156v | TGACAGAAGAGAGTGAGCACA | 21 | 6 | 4013560:4013688:+ | 5 | 173 | 156 | 99 | 108 | No |
miR156w | TGACAGAAGAGAGTGAGCACA | 21 | 14 | 9431588:9431718:+ | 5 | 173 | 156 | 99 | 108 | No |
miR156x | TGACAGAAGAGAGTGAGCACA | 21 | 17 | 38431855:38431985: − | 5 | 173 | 156 | 99 | 108 | No |
miR156y | CTGACAGAAGATAGAGAGCAC | 21 | 18 | 61442592:61442691: − | 5 | 28 | 27 | 196 | 106 | No |
miR156z | GCTCACTACTCTTTCTGTCGGTT | 23 | 19 | 40699080:40699213: − | 3 | 503 | 491 | 12 | 17 | No |
miR156_c1 | TTGACAGAAGAAAGGGAGCAC | 21 | 1 | 55282671:55282770:+ | 5 | 291 | 274 | 0.01 | 0.01 | No |
miR156_c2 | TTGACAGAAGAAAGGGAGCAC | 21 | 11 | 453213:453312: − | 5 | 291 | 274 | 0.01 | 0.01 | No |
miR156_c3 | TTGACAGAAGAGAGAGAGCAC | 21 | 2 | 50779230:50779334: − | 5 | 182 | 139 | 45 | 32 | No |
miR159e-3p | TTTGGATTGAAGGGAGCTCTA | 21 | 7 | 9524916:9525128: − | 5 | 191 | 250 | 293 | 109 | Yes |
miR160f | GCGTATGAGGAGCCAAGCATA | 21 | 10 | 43851636:43851757: − | 3 | 56 | 46 | 117 | 128 | No |
miR160g | GCGTATGAGGAGCCAAGCATA | 21 | 20 | 40554887:40554987:+ | 3 | 56 | 46 | 117 | 128 | No |
miR162c | TCGATAAACCTCTGCATCCAG | 21 | 17 | 10181487:10181612:+ | 3 | 97 | 111 | 59 | 54 | Yes |
miR164e | TGGAGAAGCAGGGCACGTGCA | 21 | 2 | 1511590:1511686:+ | 5 | 1621 | 2713 | 969 | 1532 | No |
miR164f | TGGAGAAGCAGGGCACGTGCA | 21 | 3 | 45537767:45537877:+ | 5 | 1621 | 2713 | 969 | 1532 | No |
miR164g | TGGAGAAGCAGGGCACGTGCA | 21 | 3 | 46896220:46896314:+ | 5 | 1621 | 2713 | 969 | 1532 | No |
miR164h | TGGAGAAGCAGGGCACGTGCA | 21 | 19 | 48157202:48157297:+ | 5 | 1621 | 2713 | 969 | 1532 | No |
miR164i | TGGAGAAGCAGGGCACGTGCA | 21 | 20 | 45788090:45788206: − | 5 | 1621 | 2713 | 969 | 1532 | No |
miR166a-5p | GGAATGTTGTCTGGCTCGAGG | 21 | 16 | 1912569:1912713: − | 5 | 171 | 362 | 89 | 110 | Yes |
miR166g | TCGGACCAGGCTTCATTCCCC | 21 | 10 | 2905308:2905432: − | 3 | 16705 | 19874 | 20693 | 18766 | Yes |
miR166h-3p | TCTCGGACCAGGCTTCATTCC | 21 | 8 | 14990535:14990743:+ | 3 | 520 | 620 | 5834 | 5908 | Yes |
miR166j-3p | TCGGACCAGGCTTCATTCCCG | 21 | 15 | 3688752:3688943: − | 3 | 964 | 1127 | 3563 | 3670 | Yes |
miR166k | TCGGACCAGGCTTCATTCCCT | 21 | 6 | 10985730:10985884:+ | 3 | 1128 | 1461 | 2223 | 2182 | No |
miR166l | TCTCGGACCAGGCTTCATTC | 20 | 16 | 3661371:3661614:+ | 3 | 48 | 32 | 649 | 549 | No |
miR166m | TCTCGGACCAGGCTTCATTC | 20 | 19 | 36649690:36649989: − | 3 | 48 | 32 | 649 | 549 | No |
miR166n | TTTCGGACCAGGCTTCATTCC | 21 | 3 | 39519830:39519954: − | 3 | 72 | 68 | 148 | 113 | No |
miR166o | TCGGACCAGGCTTCATTCCC | 20 | 6 | 12992803:12992972: − | 3 | 75 | 53 | 118 | 103 | No |
miR166p | TCGGACCAGGCTTCATTCCC | 20 | 7 | 10198823:10198944:+ | 3 | 75 | 53 | 118 | 103 | No |
miR166q | TCGGACCAGGCTTCATTCCC | 20 | 9 | 37125221:37125362: − | 3 | 75 | 53 | 118 | 103 | No |
miR166r | GGAATGTCGTCTGGTTCGAGA | 21 | 2 | 14340754:14340878:+ | 5 | 120 | 116 | 12 | 15 | No |
miR166s | TTCGGACCAGGCTTCATTCCCC | 22 | 5 | 37747448:37747571: − | 3 | 163 | 192 | 106 | 100 | No |
miR166t | TTCGGACCAGGCTTCATTCCCC | 22 | 8 | 282637:282760: − | 3 | 163 | 192 | 106 | 100 | No |
miR166u | GGAATGTTGTCTGGCTCGAGG | 21 | 6 | 12992922:12993135: − | 5 | 177 | 370 | 92 | 114 | No |
miR167e | TGAAGCTGCCAGCATGATCTT | 21 | 20 | 37901894:37902003:+ | 5 | 1866 | 1676 | 2108 | 1984 | Yes |
miR167g | TGAAGCTGCCAGCATGATCTGA | 22 | 10 | 39044864:39044969:+ | 5 | 160 | 139 | 12 | 11 | Yes |
miR167j | TGAAGCTGCCAGCATGATCTG | 21 | 20 | 44765083:44765188:+ | 5 | 5198 | 6009 | 381 | 405 | Yes |
miR167k | TGAAGCTGCCAGCATGATCTA | 21 | 3 | 39319064:39319173:+ | 5 | 236 | 255 | 166 | 61 | No |
miR167l | TGAAGCTGCCAGCATGATCTTA | 22 | 10 | 46574251:46574360: − | 5 | 1210 | 1096 | 951 | 839 | No |
miR168 | TCGCTTGGTGCAGGTCGGGAA | 21 | 9 | 41353223:41353352: − | 5 | 10469 | 8526 | 7573 | 7864 | Yes |
miR168c | CCCGCCTTGCATCAACTGAAT | 21 | 1 | 48070300:48070429: − | 3 | 195 | 223 | 277 | 327 | No |
miR168d | CCCGCCTTGCATCAACTGAAT | 21 | 9 | 41353223:41353352: − | 3 | 195 | 223 | 277 | 327 | No |
miR169c | AAGCCAAGGATGACTTGCCGA | 21 | 9 | 5295079:5295216:+ | 5 | 29 | 12 | 119 | 95 | Yes |
miR169f | CAGCCAAGGATGACTTGCCGG | 21 | 10 | 40332781:40332933: − | 5 | 103 | 99 | 29 | 32 | Yes |
miR169o | CAGCCAAGGGTGATTTGCCGG | 21 | 15 | 14150055:14150198:+ | 5 | 72 | 144 | 301 | 326 | No |
miR169p | AAGCCAAGGATGACTTGCCGG | 21 | 9 | 5299595:5299718:+ | 5 | 21 | 14 | 118 | 92 | No |
miR169q | AAGCCAAGGATGACTTGCCGA | 21 | 15 | 14202454:14202568:+ | 5 | 0.01 | 12 | 125 | 102 | No |
miR169r | AAGCCAAGGATGACTTGCCGG | 21 | 17 | 4864165:4864284: − | 5 | 0.01 | 0.01 | 122 | 0.01 | No |
miR172b-3p | AGAATCTTGATGATGCTGCAT | 21 | 13 | 40401672:40401822: − | 3 | 3576 | 4906 | 584 | 689 | Yes |
miR172h-5p | GCAGCAGCATCAAGATTCACA | 21 | 10 | 43474719:43474839:+ | 5 | 103 | 97 | 9 | 11 | Yes |
miR172k | TGAATCTTGATGATGCTGCAT | 21 | 12 | 33560621:33560754:+ | 3 | 89 | 133 | 0.01 | 0.01 | No |
miR390b | AAGCTCAGGAGGGATAGCACC | 21 | 2 | 44954748:44954865:+ | 5 | 32 | 28 | 175 | 199 | Yes |
miR390d | AAGCTCAGGAGGGATAGCGCC | 21 | 11 | 30272752:30272868:+ | 5 | 515 | 328 | 230 | 268 | No |
miR390e | AAGCTCAGGAGGGATAGCGCC | 21 | 18 | 53278026:53278171:+ | 5 | 515 | 328 | 230 | 268 | No |
miR390f | AAGCTCAGGAGGGATAGCGCC | 21 | 18 | 5047758:5047875: − | 5 | 515 | 328 | 230 | 268 | No |
miR396a-5p | TTCCACAGCTTTCTTGAACTG | 21 | 13 | 26338131:26338273: − | 5 | 75 | 110 | 323 | 299 | Yes |
miR396b-3p | GCTCAAGAAAGCTGTGGGAGA | 21 | 13 | 26329939:26330049:+ | 3 | 138 | 220 | 0.01 | 0.01 | Yes |
miR396c | TTCCACAGCTTTCTTGAACTT | 21 | 13 | 43804787:43804882:+ | 5 | 141 | 191 | 93 | 101 | Yes |
miR396j | GTTCAATAAAGCTGTGGGAAG | 21 | 13 | 26338141:26338266: − | 5 | 0.01 | 130 | 0.01 | 0.01 | No |
miR396k | GCTCAAGAAAGCTGTGGGAGA | 21 | 13 | 26329931:26330059:+ | 3 | 91 | 172 | 8 | 21 | No |
miR397a | TCATTGAGTGCAGCGTTGATG | 21 | 8 | 4639045:4639154: − | 5 | 161 | 253 | 0.01 | 17 | Yes |
miR399a | TGCCAAAGGAGATTTGCCCAG | 21 | 5 | 34958613:34958732: − | 3 | 21 | 712 | 8 | 280 | No |
miR399b | TGCCAAAGGAGATTTGCCCAG | 21 | 5 | 34967642:34967778: − | 3 | 21 | 712 | 8 | 280 | No |
miR399c | TGCCAAAGGAGATTTGCCCAG | 21 | 8 | 9118500:9118624: − | 3 | 21 | 712 | 8 | 280 | No |
miR399d | TGCCAAAGGAGATTTGCCCAG | 21 | 8 | 9126508:9126640: − | 3 | 21 | 712 | 8 | 280 | No |
miR399e | TGCCAAAGAAGATTTGCCCAG | 21 | 5 | 34963165:34963300: − | 3 | 0.01 | 394 | 0.01 | 0.01 | No |
miR2118a | TTGCCGATTCCACCCATTCCTA | 22 | 20 | 35349746:35349875:+ | 3 | 2084 | 3812 | 2429 | 2557 | Yes |
miR2118b | TTGCCGATTCCACCCATTCCTA | 22 | 10 | 48574023:48574132: − | 3 | 2084 | 3812 | 2429 | 2557 | Yes |
miR408b −5p | CTGGGAACAGGCAGGGCACG | 20 | 3 | 44626682:44626839: − | 5 | 228 | 362 | 13 | 12 | Yes |
miR408c | ATGCACTGCCTCTTCCCTGGC | 21 | 10 | 36556991:36557143: − | 3 | 516 | 1215 | 70 | 84 | Yes |
miR408d | CTGGGAACAGGCAGGGCACGA | 21 | 3 | 44626682:44626839: − | 5 | 409 | 588 | 81 | 78 | No |
miR408e | CAGGGGAACAGGCAGAGCATG | 21 | 2 | 837410:837560:+ | 5 | 380 | 295 | 12 | 14 | No |
miR408f | CAGGGGAACAGGCAGAGCATG | 21 | 10 | 36556991:36557143: − | 5 | 380 | 295 | 12 | 14 | No |
miR408g | GCTGGGAACAGGCAGGGCACG | 21 | 3 | 44626682:44626839: − | 5 | 100 | 167 | 21 | 22 | No |
miR482b-3p | TCTTCCCTACACCTCCCATACC | 22 | 20 | 35360307:35360413:+ | 3 | 37 | 154 | 218 | 494 | Yes |
miR482e | GGAATGGGCTGATTGGGAAGC | 21 | 2 | 7783811:7783923:+ | 5 | 560 | 711 | 651 | 562 | No |
miR482f | TTCCCAATTCCGCCCATTCCTA | 22 | 2 | 7783811:7783923:+ | 3 | 182 | 696 | 91 | 163 | No |
miR482g | TTCCCAATTCCGCCCATTCCTA | 22 | 18 | 61452897:61453007: − | 3 | 182 | 696 | 91 | 163 | No |
miR482h | TATGGGGGGATTGGGAAGGAA | 21 | 10 | 48569622:48569728: − | 5 | 147 | 110 | 133 | 114 | No |
miR482i | TATGGGGGGATTGGGAAGGAA | 21 | 20 | 35360307:35360413:+ | 5 | 147 | 110 | 133 | 114 | No |
miR482j | TTCCCAATTCCGCCCATTCCTA | 22 | 2 | 7783818:7783913:+ | 5 | 195 | 736 | 0.01 | 186 | No |
miR482k | TTCCCAATTCCGCCCATTCCTA | 22 | 18 | 61452907:61453000: − | 5 | 195 | 736 | 0.01 | 186 | No |