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Table 2 Conserved miRNAs identified from soybean roots

From: Novel and nodulation-regulated microRNAs in soybean roots

miRNA Identity

 

Family

miRNA IDa

Sequenceb (5'-3')

Length

Detection methodc

156

gma-MIR156a

UGACAGAAGAGAGUGAGCAC

20

H, P

 

gma-MIR156c,d,e

UUGACAGAAGAUAGAGAGCAC

21

H

 

gma-MIR156?

UGACAGAAGAGAGAGAGCACA

21

H

159

gma-MIR159

UUUGGAUUGAAGGGAGCUCUA

21

H

 

gma-MIR159?

UUUGGAUUGAAGGGAGCUA

19

H

 

gma-MIR159?

AUUGGAUUGAAGGGAGCUC

19

H

 

gma-MIR159b

AUUGGAGUGAAGGGAGCUCCA

21

H, P

 

gma-MIR159c

AUUGGAGUGAAGGGAGCUCCG

21

H, P, N (21 nt)

160

gma-MIR160

UGCCUGGCUCCCUGUAUGCCA

21

H

 

gma-MIR160?

UGCCUGGCUCCCUGAAUGCCA

21

H, N (21 nt)

162

gma-MIR162

UCGAUAAACCUCUGCAUCCA

20

H, P

164

gma-MIR164

UGGAGAAGCAGGGCACGUGCA

21

H, P, N (21 nt)

166

gma-MIR166a,b

UCGGACCAGGCUUCAUUCCCC

21

H

 

gma-MIR166?

UCGGACCAGGCUUCAUUCCCG

21

H, N (21 nt)

167

gma-MIR167a,b

UGAAGCUGCCAGCAUGAUCUA

21

H, P

 

gma-MIR167c

UGAAGCUGCCAGCAUGAUCUG

21

H, Pd

 

gma-MIR167?

UGAAGCUGCCAGCAUGAUCUU

21

H

168

gma-MIR168

UCGCUUGGUGCAGGUCGGGAA

21

H, N (21 nt)

169

gma-MIR169

CAGCCAAGGAUGACUUGCCGG

21

H, P, N (21 nt)

 

gma-MIR169b

CAGCCAAGGAUGACUUGCCGA

21

H, P

 

gma-MIR169c

AAGCCAAGGAUGACUUGCCGA

21

H, P

171

gma-MIR171a

UUGAGCCGUGCCAAUAUCACG

21

H, P

 

gma-MIR171?

UUGAGCCGCGCCAAUAUCACU

21

H

 

gma-MIR171?

UUGAGCCGCGUCAAUAUCUCA

21

H

 

gma-MIR171?

CGAGCCGAAUCAAUAUCACUC

21

H

172

gma-MIR172a,b

AGAAUCUUGAUGAUGCUGCAU

21

H, P, N (21 nt)

319

gma-MIR319a,b

UUGGACUGAAGGGAGCUCCC

20

H, P

 

gma-MIR319?

UUGGACUGAAAGGAGCUCCU

20

H

 

gma-MIR319c

UGGACUGAAGGGAGCUCCUUC

21

H, P

390

gma-MIR390a

AAGCUCAGGAGGGAUAGCGCC

21

H, P, mi*

 

gma-MIR390b

AAGCUCAGGAGGGAUAGCACC

21

H, P

393

gma-MIR393

UCCAAAGGGAUCGCAUUGAUC

21

H, P, N (21 nt)

396

gma-MIR396a

UUCCACAGCUUUCUUGAACUG

21

H, P, N (21 nt), mi*

 

gma-MIR396b

UUCCACAGCUUUCUUGAACUU

21

H, P

397

gma-MIR397?

UCAUUGAGUGCAGCGUUGA

19

H

482?

gma-MIR482?

UCUUCCCUACACCUCCCAUACC

22

H

845?

gma-MIR845?

UCGACUCUGAUACCAAUUGUUG

22

H

894?

gma-MIR894?

UUCACGUCGGGUUCACCA

18

H

1055?

gma-MIR1055?

AUUUAGAGGGUGUUUUCCAGUGU

23

H

  1. a Novel soybean miRNA families or loci identified in this study are shown bold faced.
  2. b Consensus sequence obtained by aligning all reads with the family. Sequences with mismatches other than overhangs were marked as additional loci
  3. c'H' denotes identification based on homology to conserved miRNA in miRbase, P denotes identification based on analysis of hairpin forming precursor, N denotes validation by Northern analysis and (n) indicates the estimated size of miRNA detected by Northern analysis. Note: Northern probes may not differentiate between members of the same family due to high sequence identity.
  4. d Tested by Northern, but not detected.
  5. '?' followed by MIR number indicates that IDs were not yet assigned by miRbase due to the absence of precursor sequence.