Table 4 Representative targets of conserved miRNA in four roses
miRNA | Sequence (5′-3′) | Va | Ma | Sa | Ha | Target (UniGene)b | PS* | Annotation |
|---|---|---|---|---|---|---|---|---|
miR156a c | UGACAGAAGAGAGUGAGCUC | 1,393 | 1,861 | 2,755 | 3,616 | H_CL12502Contig1 d | 2 | squamosa promoter-binding-like protein |
M_CL3280Contig1 d | 2 | squamosa promoter-binding-like protein | ||||||
S_FJZMSUQ02I0U8Q d | 2 | squamosa promoter-binding-like protein | ||||||
V_CL1436Contig1 | 2 | squamosa promoter-binding-like protein | ||||||
miR159 c | UUUGGAUUGAAGGGAGCUCUA | 327,436 | 271,208 | 264,412 | 187,579 | H_F09TDQC01DKJVB | 4 | U-box domain-containing protein |
M_FJZMSUQ02JDPLW d | 3.5 | r2r3-myb transcription factor | ||||||
S_FJZMSUQ02FP8OE | 4 | U-box domain-containing protein | ||||||
V_F1XUE2F01EH5K8 d | 3.5 | r2r3-myb transcription factor | ||||||
miR160 c | UGCCUGGCUCCCUGUAUGCCA | 682 | 739 | 1,739 | 783 | H_F1XUE2F01ECCC8 | 0.5 | putative auxin response factor ARF16 |
M_FJZMSUQ02HS2DI | 0.5 | putative auxin response factor ARF16 | ||||||
S_FJZMSUQ02JJQL0 d | 0.5 | putative auxin response factor ARF16 | ||||||
miR164b c | UGGAGAAGCAGGGCACGUGCA | 1,618 | 1,166 | 753 | 735 | H_F1XUE2F01CXKY2 d | 3 | NAC domain protein |
M_CL5581Contig1 | 2.5 | NAC domain protein | ||||||
V_CL3217Contig1 | 2.5 | NAC domain protein | ||||||
miR167c c | UGAAGCUGCCAGCAUGAUCUC | 19,155 | 21,149 | 28,997 | 17,491 | H_CL5998Contig1 | 4 | ARF domain class transcription factor |
M_CL367Contig1 | 4 | ARF domain class transcription factor | ||||||
S_CL788Contig1 | 4 | ARF domain class transcription factor | ||||||
V_F1XUE2F01AFQWV | 4 | ARF domain class transcription factor | ||||||
miR168 c | UCGCUUGGUGCAGGUCGGGAA | 40 | 145 | 33 | 98 | H_F09TDQC01CTD5O | 3.5 | argonaute protein group |
M_CL4618Contig1 | 0.5 | argonaute protein group | ||||||
miR172 c | GGAAUCUUGAUGAUGCUGCAG | 2,590 | 1,369 | 1,728 | 720 | H_CL8041Contig1 | 1 | AP2 domain class transcription factor |
S_CL1813Contig1 d | 1 | AP2 domain class transcription factor | ||||||
V_CL10861Contig1 | 1 | AP2 domain class transcription factor | ||||||
miR319a c | UUGGACUGAAGGGAGCUCCC | 392 | 1,117 | 630 | 518 | H_F1XUE2F01EUODN | 4 | TCP domain class transcription factor |
M_CL839Contig1 | 3.5 | TCP domain class transcription factor | ||||||
S_CL7921Contig1 | 4 | TCP domain class transcription factor | ||||||
V_F1XUE2F01EH5K8 | 3 | r2r3-myb transcription factor | ||||||
miR394 c | UUGGCAUUCUGUCCACCUCC | 227 | 2,251 | 732 | 310 | H_F1XUE2F01DV50Z d | 1 | F-box family protein |
M_CL9289Contig1 | 1 | F-box family protein | ||||||
S_CL298Contig1 | 3.5 | conserved hypothetical protein | ||||||
V_CL3647Contig1 | 3.5 | conserved hypothetical protein | ||||||
miR396 c | UUCCACAGCUUUCUUGAACUG | 10,509 | 20,749 | 9,975 | 6,184 | M_CL458Contig1 | 4 | 3-dehydroquinate dehydrogenase |
S_FJZMSUQ02FG68V | 3.5 | ATP binding protein | ||||||
V_CL7932Contig1 | 3 | uncharacterized protein | ||||||
miR482b c | UCUUUCCUAUUCCUCCCAUCCC | 2,150 | 5,734 | 4,173 | 6,112 | H_F09TDQC01C8RL9 | 4 | TIR-NBS-LRR resistance protein |
S_FJZMSUQ02IMY8Q | 4 | TIR-NBS-LRR resistance protein | ||||||
V_F1XUE2F01BNZWC | 3 | TIR-NBS-LRR resistance protein | ||||||
miR530a | UGCAUUUGCACCUGCACCUCU | 231 | 205 | 88 | 237 | H_CL335Contig4 | 2.5 | BZIP domain class transcription factor |
M_CL83Contig1 | 2.5 | BZIP domain class transcription factor | ||||||
S_CL3168Contig1 | 2.5 | BZIP domain class transcription factor | ||||||
V_CL1619Contig1 | 2.5 | BZIP domain class transcription factor | ||||||
miR894 | CGUUUCACGUCAGGUUCACCA | 494 | 325 | 736 | 239 | H_CL672Contig1 | 3 | E3 ubiquitin-protein ligase |
M_CL2017Contig1 | 3 | E3 ubiquitin-protein ligase | ||||||
V_CL3434Contig1 | 3 | E3 ubiquitin-protein ligase | ||||||
Ng3 e | UCUAAGAAACAUUCCUUGAUG | 186 | 391 | 155 | 77 | S_FJZMSUQ02GRX36 | 2 | Probable disease resistance protein |
S_CL7967Contig1 | 2 | Probable disease resistance protein | ||||||
V_CL9334Contig1 | 4 | Probable disease resistance protein | ||||||
Ng11 e | GUGGAGUUCUGGGAAAGAAG | 51 | 8 | 2 | 7 | H_CL10098Contig1 | 3.5 | Matrix metalloprotease 1 |
M_CL1633Contig2 | 4 | Acyltransferase-like protein | ||||||
S_CL7901Contig1 | 3.5 | Metalloendoproteinase 1-like |