Table 5.
miRNA isoforms identified in the soybean.
| Groupa | Acronym | Sequenceb | N isosc | Pre-miRNA | ||
|---|---|---|---|---|---|---|
| Ch | Start | End | ||||
| 5 | gma-MIR156g | +2/ACAGAAGATAGAGAGCAC/+2 | 2 | Gm19 | 8895390 | 8895493 |
| 5 | gma-MIR159a-3p | +2/TGGATTGAAGGGAGCTCT/+1 | 4 | Gm09 | 37672410 | 37672586 |
| 4 | gma-MIR159a-5p | GAGCTCCTTGAAGTCCAATT/+1 | 2 | Gm09 | 37672410 | 37672586 |
| 3 | gma-MIR159e-3p | +2/TGGATTGAAGGGAGCTC/+2 | 5 | Gm07 | 9524917 | 9525127 |
| 3 | gma-MIR166f | TCTCGGACCAGGCTTCATTC/+1 | 2 | Gm20 | 43105394 | 43105500 |
| 5 | gma-MIR167g | TGAAGCTGCCAGCATGATCTG/+1 | 2 | Gm10 | 39044877 | 39044954 |
| 3 | gma-MIR169g | +1/AGCCAAGAATGACTTGCCGG | 2 | Gm09 | 5263992 | 5264096 |
| 3 | gma-MIR169h | +1/AGCCAAGAATGACTTGCCGG | 2 | Gm14 | 5324798 | 5324911 |
| 5 | gma-MIR172c | +1/GAATCTTGATGATGCTGCAG | 2 | Gm18 | 2968986 | 2969138 |
| 5 | gma-MIR172d | +1/GAATCTTGATGATGCTGCAG/+3 | 3 | Gm14 | 5548752 | 5548901 |
| 5 | gma-MIR172e | +1/GAATCTTGATGATGCTGCAG/+3 | 3 | Gm11 | 35957808 | 35957960 |
| 3 | gma-MIR172h-5p | GCAGCAGCATCAAGATTCAC/+1 | 2 | Gm10 | 43474725 | 43474831 |
| 3 | gma-MIR172i | GCAGCAGCATCAAGATTCAC/+1 | 2 | Gm15 | 2892962 | 2893122 |
| 3 | gma-MIR172j | GCAGCAGCATCAAGATTCAC/+1 | 2 | Gm20 | 40895747 | 40895836 |
| 5 | gma-MIR319a | TTGGACTGAAGGGAGCTCCC/+1 | 2 | Gm05 | 40832097 | 40832279 |
| 5 | gma-MIR319b | TTGGACTGAAGGGAGCTCCC/+1 | 2 | Gm08 | 1647815 | 1647987 |
| 3 | gma-MIR319d | +2/GGACTGAAGGGAGCTCCTTC | 2 | Gm02 | 43885398 | 43885595 |
| 3 | gma-MIR319f | +1/TGGACTGAAGGGGAGCTCCTTC | 2 | Gm04 | 46348798 | 46348991 |
| 3 | gma-MIR319j | +2/GGACTGAAGGGAGCTCCTTC | 2 | Gm14 | 45953433 | 45953649 |
| 3 | gma-miR319k | +2/GGACTGAAGGGAGCTCCTTC | 2 | Gm17 | 9436178 | 9436279 |
| 4 | gma-MIR396a-3p | +1/TTCAATAAAGCTGTGGGA/+2 | 3 | Gm13 | 26338134 | 26338273 |
| 5 | gma-MIR396a-5p | +1/TCCACAGCTTTCTTGAACTG | 2 | Gm13 | 26338134 | 26338273 |
| 4 | gma-MIR396b-3p | +1/CTCAAGAAAGCTGTGGGAGA | 2 | Gm13 | 26329931 | 26330056 |
| 5 | gma-MIR396d-3p | +4/AAGAAAGCTGTGGGAGA/+7 | 3 | Gm17 | 9053051 | 9053155 |
| 4 | gma-MIR396d-5p | TTCCACAGCTTTCTTGAACT/+1 | 2 | Gm17 | 9053051 | 9053155 |
| 5 | gma-MIR396e | +1/TCCACAGCTTTCTTGAACT/+2 | 4 | Gm17 | 35366535 | 35366668 |
| 3 | gma-MIR396g | TTCCACAGCTTTCTTGAACT/+1 | 2 | Gm15 | 556707 | 556796 |
| 3 | gma-MIR396h-3p | +1/TTCAATAAAGCTGTGGGA/+2 | 3 | Gm17 | 9044861 | 9044973 |
| 3 | gma-MIR396h-5p | +1/TCCACAGCTTTCTTGAACT/+1 | 3 | Gm17 | 9044850 | 9044984 |
| 5 | gma-MIR482a-5p | +12/AATGGGCTGATTGG/+5 | 5 | Gm01 | 7783819 | 7783913 |
| 5 | gma-MIR482b-5p | +1/ATGGGGGGATTGGGAAGGA/+2 | 4 | Gm20 | 35360312 | 35360406 |
| 3 | gma-MIR482d-5p | TATGGGGGGATTGGGAAGGA/+2 | 3 | Gm10 | 48569629 | 48569723 |
| 5 | gma-MIR1507a | +3/CATTCCATACATCGTC/+6 | 8 | Gm13 | 25849777 | 25849883 |
| 5 | gma-MIR1507b | +3/CATTCCATACATCGTC/+5 | 8 | Gm17 | 6190604 | 6190701 |
| 5 | gma-MIR1508a | +4/GAAAGGGAAATAGCAGT/+2 | 6 | Gm16 | 32903737 | 32903831 |
| 5 | gma-MIR1508b | +2/GAAAGGGAAATAGCAGTTG | 3 | Gm09 | 28530168 | 28530271 |
| 5 | gma-MIR1509b | TTAATCAAGGAAATCACGGTT/+1 | 2 | Gm05 | 7774098 | 7774206 |
| 5 | gma-MIR1510a | +3/TTGTTTTACCTATTCCA/+6 | 7 | Gm16 | 31518908 | 31519000 |
| 5 | gma-MIR1510b-3p | TGTTGTTTTACCTATTCCA/+3 | 4 | Gm02 | 6599299 | 6599392 |
| 4 | gma-MIR1510b-5p | +3/GATAGGTAAAACAACTA/+2 | 5 | Gm02 | 6599299 | 6599392 |
| 5 | gma-MIR1511 | AACCAGGCTCTGATACCATG/+1 | 2 | Gm18 | 21161236 | 21161334 |
| 5 | gma-MIR1514a | TTCATTTTTAAAATAGGCATT/+1 | 2 | Gm07 | 43175810 | 43175908 |
| 5 | gma-MIR1523 | +1/ATGGGATAAATGTGAGCTC/+1 | 2 | Gm02 | 12253303 | 12253397 |
| 5 | gma-MIR2109a-5p | TGCGAGTGTCTTCGCCTCTG/+1 | 2 | Gm04 | 28532441 | 28532537 |
| 4 | gma-MIR2109a-3p | +2/AGGCGTAGATACTCACAC/+2 | 4 | Gm04 | 28532441 | 28532537 |
| 5 | gma-MIR4345 | +9/ACTTACAAAGAT/+12 | 3 | Gm14 | 49069099 | 49069193 |
| 5 | gma-MIR4413a | +1/AAGAGAATTGTAAGTCACT/+1 | 3 | Gm19 | 1788518 | 1788617 |
| 3 | gma-MIRSeq07 | +14/GACTTG/+14 | 14 | Gm01 | 44787899 | 44787988 |
| 3 | gma-MIRSeq14b | +2/AGAATTTGGCCTCTGTCCA | 2 | Gm09 | 28272488 | 28272562 |
| 3 | gma-MIRSeq10-3p | +20/G/+20 | 4 | Gm15 | 31542836 | 31543058 |
| 3 | gma-MIRSeq20 | CATCGTTGACGCTGACTGT/+3 | 2 | Gm04 | 35428794 | 35428950 |
| 2 | gma-MIR408a | +1/TGCACTGCCTCTTCCCTGGC | 2 | Gm02 | 837416 | 837548 |
| 2 | gma-MIR408c | +1/TGCACTGCCTCTTCCCTGGC | 2 | Gm10 | 36557005 | 36557130 |
| 2 | gma-MIR2218a-5p | GGAGATGGGAGGGTCGGTAA/+2 | 2 | Gm10 | 48574017 | 48574137 |
| 2 | gma-MIR3522a | +8/AGACCAAATGAGC/+6 | 4 | Gm15 | 4318787 | 4318873 |
a The group number refers to: (2) the miRNAs previously identified in other plant species as described in Table 2; (3) the new miRNAs identified in the families of conserved miRNAs in soybean; (4) miRNAs originated from the opposite arm of miRNAs previously identified; and (5) miRNAs registered in the miRBase database that were detected in our libraries. b Sequence conserved between all isoforms and the number of nucleotide variations in each end. c Total number of isoforms (isos) including the typical member for that gene.