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Table 1 Target prediction and degradome analysis of known miRNAs

From: microRNAs participate in gene expression regulation and phytohormone cross-talk in barley embryo during seed development and germination

miRNA Target CDS_ID Target annotation Binding site on CDS PARE_cut sites
miR156 AK356077 Squamosa promoter-binding protein 839–858 849
AK374598 Squamosa promoter-binding protein 860–879 870
MLOC_11199.2 Squamosa promoter-binding-like protein 11 1154–1173 1164
miR159 AK251726.1 MYB transcription factor 962–982 973
AK370348 Predicted protein 1009–1028 948 and 1019
miR160 MLOC_64795.1 Auxin response factor 17 1329–1349 1340
MLOC_69988.1 Auxin response factor 10 717–737 728
miR165 MLOC_44268.1 MATE efflux family protein 159–179 170
AK362009 Class III homeo domain-leucine zipper 578–598 589
AK364215 Class III homeo domain-leucine zipper 639–658 649
MLOC_58644.1 Class III homeo domain-leucine zipper 980–1000 991
miR166 AK362009 Class III homeo domain-leucine zipper 578–598 589
AK364215 Class III homeo domain-leucine zipper 638–658 649
AK364215 Class III homeo domain-leucine zipper 640–658 649
AK365312 Class III homeo domain-leucine zipper 563–583 574
MLOC_44268.1 MATE efflux family protein 159–179 170
MLOC_58644.1 Class III homeo domain-leucine zipper 980–1000 991
miR167 MLOC_51932.2 Auxin response factor 30 2343–2363 2354
MLOC_58330.2 Auxin response factor 18 2528–2549 2540
MLOC_63938.1 Auxin response factor 9 2402–2423 2414
miR171 AK371946 GRAS family transcription factor 1090–1109 1100
miR172 AK355002 AP2-like ethylene-responsive transcription factor 1214–1234 1225
miR319 AK370348 TCP family transcription factor containing protein 1009–1028 1019
MLOC_63989.1 TCP family transcription factor containing protein 976–995 986
miR360 MLOC_69988.1 Auxin response factor 19 717–737 728
miR393 AK355927 Auxin signaling F-box 2 1560–1580 1571
AK374984 Auxin signaling F-box 3 1974–1994 1985
miR396 MLOC_64055.4 Growth-regulating factor 2 375–395 386
AK250947.1 Growth-regulating factor 1 480–500 491
AK353813 Growth-regulating factor 1 387–407 398
AK376404 Growth-regulating factor 5 417–437 428
MLOC_67201.4 Growth-regulating factor 1 741–761 752
MLOC_80060.1 Growth-regulating factor 1-like 507–527 518
MLOC_12347.1 Pre-mRNA-processing protein 45 1438–1458 1449
AK375237 Nascent polypeptide-associated complex subunit alpha-like protein 184–204 195
miR444 MLOC_16182.1 RING finger protein 1035–1055 1046
miR5051 MLOC_57965.3 Serine/threonine protein kinase 595–615 606
miR7757 MLOC_17471.2 NBS-LRR disease resistance protein, putative 194–215 206
miR9863 MLOC_24045.1 Disease resistance protein
(CC-NBS-LRR class) family
1259–1280 1271