Table 6 Computationally predicted transcript targets of miR399 species identified from sRNA deep sequencing in N. benthamiana
Sequencing IDa (miRNA name/number) | Nearest homologue | miRNA Sequence | miRNA Length | Expectb | Target Transcript, Target Accessionc | Cleavage validation by 5’ RACE |
|---|---|---|---|---|---|---|
B29_6_545_21_6_mir399 (miR399–1) | Ptc-miR399d | UGCCAAAGAAGAUUUGCCCCG | 21 | 2 | Inorganic phosphate transporter 1–4 (PHT1;4) (probable) Nbv5.1tr6377121 | Yes |
M00266_miR399 (miR399–3) | osa-miR399j | UGCCAAAGGAGAGUUGCCCUA | 2 | |||
B465_1_1169_21_2_mir399 (miR399–5) | Ath-miR399b | UGCCAAAGGAGAGUUGCCCUG | 2 | |||
B1376_1_8_21_2_mir399 (miR399–4) | osa-miR399i | UGCCAAAGGAGAGCUGCCCUG | 3 | |||
B947_1_816_21_1_NA (miR399–2) | Ptc-miR399f/g | UGCCAAAGGAGAAUUGUCCUG | 3.5 | |||
B947_1_816_21_1_NA (miR399–2) | Ptc-miR399f/g | UGCCAAAGGAGAAUUGUCCUG | 21 | 2 | Pattern formation protein: EMB30 (probable) Nbv5.1tr6253408 | No |
M00266_miR399 (miR399–3) | osa-miR399j | UGCCAAAGGAGAGUUGCCCUA | 3.5 | |||
B465_1_1169_21_2_mir399 (miR399–5) | Ath-miR399b | UGCCAAAGGAGAGUUGCCCUG | 3.5 | |||
B29_6_545_21_6_mir399 (miR399–1) | Ptc-miR399d | UGCCAAAGAAGAUUUGCCCCG | 4.5 | |||
B1376_1_8_21_2_mir399 (miR399–4) | osa-miR399i | UGCCAAAGGAGAGCUGCCCUG | 4.5 | |||
B29_6_545_21_6_mir399 (miR399–1) | Ptc-miR399d | UGCCAAAGAAGAUUUGCCCCG | 21 | 2.5 | Probable UBIQUITIN-CONJUGATING ENZYME E2 24 (probable) Nbv5.1tr6424601d | Yes (two sites) |
3 | ||||||
3 | ||||||
2 | ||||||
B947_1_816_21_1_NA (miR399–2) | Ptc-miR399f/g | UGCCAAAGGAGAAUUGUCCUG | 21 | 5 | ||
2 | ||||||
3.5 | ||||||
1.5 | ||||||
M00266_miR399 (miR399–3) | osa-miR399j | UGCCAAAGGAGAGUUGCCCUA | 21 | 4.5 | ||
3 | ||||||
3 | ||||||
1 | ||||||
B1376_1_8_21_2_mir399 (miR399–4) | osa-miR399i | UGCCAAAGGAGAGCUGCCCUG | 21 | – | ||
4 | ||||||
4 | ||||||
2 | ||||||
B465_1_1169_21_2_mir399 (miR399–5) | Ath-miR399b | UGCCAAAGGAGAGUUGCCCUG | 21 | 4.5 | ||
3 | ||||||
3 | ||||||
1 |