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Table 2 New miRNAs in P. trichocarpa

From: Identification of drought-responsive and novel Populus trichocarpamicroRNAs by high-throughput sequencing and their targets using degradome analysis

  

Counts of

    

Found

miRNAs

Sequences(5’-3’)

miRNAs

miRNA Locations

Arm

LP

MEF

by

  

(miRNAs*)

  

(nt)

(kcal/mol)

others

Ptc-miRn1

CUGUUAUGAAUUGAUGGAGUG

71(10)

scaffold_14:13399032:13399142:-

3’

111

−56.3

 

Ptc-miRn2

UGGUAAUGCAAGUGUUGCUAA

22(15)

scaffold_11:1025164:1025342:+

3’

179

−67.2

 

Ptc-miRn3

UAGAUUGUUUUUAUGCUUUGA

19(2)

scaffold_16:10809578:10809788:+

5’

211

−106.5

D

Ptc-miRn4

CUCUUCAAAUAAAUCGUGGGA

380(12)

scaffold_4:10873191:10873312:-

3’

122

−66.8

 

Ptc-miRn5

AAUGUUGUUAUUAACACUGUA

127(27)

scaffold_4:20884831:20884933:+

3’

103

−48.2

 

Ptc-miRn6a

UUAUGCAUUUUUGUCCCUCGC

171(1)

scaffold_4:2221707:2221834:+

3’

128

−64.5

 

Ptc-miRn6b

UUAUGCAUUUUUGUCCCUCGC

171(52)

scaffold_5:24265933:24266061:+

3’

129

−63.2

F

Ptc-miRn6c

UUAUGCAUUUUUGUCCCUCGC

171(49)

scaffold_5:24270121:24270264:+

3’

144

−67.7

 

Ptc-miRn6d

UUAUGCAUUUUUGUCCCUCGC

171(1)

scaffold_5:24280115:24280237:+

3’

123

−51.6

F

Ptc-miRn7a

UCUUAUGCGUUUUUGUCUCU

238(3)

scaffold_5:24266243:24266355:+

3’

113

−60.7

D

Ptc-miRn7b

UCUUAUGCGUUUUUGUCUCU

238(26)

scaffold_5:24270440:24270552:+

3’

113

−61.6

CD

Ptc-miRn8

UUUGGUUAUUGUCUCGAGACA

1664(23)

scaffold_15:1581044:1581277:-

5’

234

−95.6

 

Ptc-miRn9

UUUCUUAUCGAUCACUAGACG

41(1)

scaffold_1112:3373:3393:+

3’

116

−54.4

 

Ptc-miRn10

UCUCUUCUGUUCCUGAACGGU

16(7)

scaffold_1:15618173:15618365:+

3’

193

−63.4

 

Ptc-miRn11

UUGCUGAAACGAUUGAACUAU

70(2)

scaffold_9:10835006:10835091:+

3’

86

−48.6

E

Ptc-miRn12

UCUUGAGAACAUGAUGAAUCG

11(1)

scaffold_11:4410758:4410914:+

5’

157

−57.7

 

Ptc-miRn13

UGAUGAUUAAUUGACUGCAAA

754(51)

scaffold_1:34025510:34025606:+

5’

97

−60.1

E

Ptc-miRn14

AUCAUAUAGGUUGAUCCUCGU

18(1)

scaffold_6:6189111:6189190:-

5’

80

−58.6

 

Ptc-miRn15

UCUGUCGCUGGAAAGAUGGUAC

57000(57)

scaffold_17:10902829:10902928:+

5’

100

−66.7

AE

Ptc-miRn16

AGAUGGGCAUCGGCAUUGUGA

116(7)

scaffold_13:797593:797704:-

3’

112

−48.9

 

Ptc-miRn17

CGCUCGCCAGCGUUGCACCACC

618(247)

scaffold_1:10455697:10455799:-

5’

103

−47.3

E

Ptc-miRn18

UUUGAAAUUGAACAAAUGGUA

10(1)

scaffold_5:17113917:17114027:+

5’

111

−64.6

 

Ptc-miRn19

UUGCAUGCAUGAACUUGAAAU

178(4)

scaffold_4:20393549:20393757:+

3’

209

−81.1

B

Ptc-miRn20

UUGAGAAAAGUCAAUCGGACC

11(1)

scaffold_13:7256997:7257111:-

5’

115

−48.5

 

Ptc-miRn21

UGUUCAGAUCAGUAGAUAGCA

1310(29)

scaffold_8:207741:207864:-

5’

124

−46.6

BE

Ptc-miRn22

UAGAGCAGAUUGUAAGGGAAG

528793(209)

scaffold_1:5198865:5198974:-

3’

110

−49.3

CDE

Ptc-miRn23

UUGAAGAAAGGUAGACAGAUAG

207(1)

scaffold_3:14589106:14589377:-

3’

272

−74.3

D

Ptc-miRn24a

CGAACGUUGACCGAAUGUGAA

15(3)

scaffold_10:11417598:11417684:-

5’

87

−31.9

 

Ptc-miRn24b

CGAACGUUGACCGAAUGUGAA

15(3)

scaffold_1646:4003:4023:+

5’

88

−35.4

 

Ptc-miRn25

UUGUACACAGAAUAGGUGAAAU

1624(7)

scaffold_5:1237647:1237753:+

3’

107

−35.4

CE

Ptc-miRn26

UUACCAAGUUUCAAAUUCUCA

8(5)

scaffold_16:2500220:2500318:-

5’

99

−53.1

 

Ptc-miRn27

GCUAGGACCAAGUUUUUUGGA

367(50)

scaffold_13:9970810:9970906:+

5’

97

−58

 

Ptc-miRn28

GAUGACAUGGACACCAAAAUC

9(6)

scaffold_1:35822741:35822925:-

5’

185

−64

 

Ptc-miRn29

ACACAGAAACUCCAAGCCCAC

48(2)

scaffold_15:14059579:14059742:-

3’

164

−88.4

 

Ptc-miRn30

UGAUCUAGAGAACCGUUGCU

38(3)

scaffold_15:5977842:5977957:+

5’

116

−54.5

 

Ptc-miRn31

UACAUGUAGAGACCACCAAAC

75(51)

scaffold_10:2022789:2023023:+

5’

235

−97.1

 

Ptc-miRn32

UGUCGCAGGAGAGAUGGCGCUA

216(21)

scaffold_17:10888890:10889033:+

5’

144

−67.8

D

Ptc-miRn33

UAGUUCCCAACCUACACCACA

6(2)

scaffold_12:5445549:5445646:+

5’

98

−63.8

 

Ptc-miRn34

UAAUUAGAACUCAUACUAGAC

44(4)

scaffold_13:3364782:3364868:+

5’

87

−38.6

 

Ptc-miRn35

UUGCCGACCCCACCCAUGCCAA

1127(309)

scaffold_10:12814698:12814812:-

3’

115

−49

D

Ptc-miRn36

UGGAUGAUCAUGUUGGCAACC

1614(364)

scaffold_4:6132662:6132818:+

3’

157

−60.3

BE

Ptc-miRn37

UGUGAUAAUGGAGGCUAUGGU

88(1)

scaffold_1:5941972:5942066:+

3’

95

−75.8

E

Ptc-miRn38

UAAUAAAAUCUCGACUAUUAU

249(4)

scaffold_11:535912:536007:-

5’

96

−44

 

Ptc-miRn39

UGGACUCCUUUGGGGAGAUGG

216(2)

scaffold_15:12480557:12480647:+

3’

91

−41.1

BE

Ptc-miRn40

UCGAAUUUGGGCUUGAGAUUG

50787(2158)

scaffold_3:9383285:9383395:+

3’

111

−45.4

ABE

Ptc-miRn41

GGAAACCUUUUGUGGGGGUUU

491(9)

scaffold_15:12329506:12329600:-

3’

95

−44.7

DE

Ptc-miRn42

GGCAUGAGGUGUUUGGCAAGA

1721(1155)

scaffold_5:11901572:11901665:-

5’

94

−38.9

A

Ptc-miRn43

GAUGGGAUUUUUCGGGAAGUG

41(13)

scaffold_10:17756662:17756763:+

3’

102

−52.3

 

Ptc-miRn44

GUUUUCCCUGAAUCACUCCCA

15(7)

scaffold_5:21920822:21920920:-

5’

99

−55.8

 

Ptc-miRn45a

UGGGUGGGAGGUGUGGUAGCU

8(1)

scaffold_5:9237322:9237483:-

5’

162

−79.9

 

Ptc-miRn45b

UGGGUGGGAGGUGUGGUAGCU

8(1)

scaffold_724:8193:8213:+

5’

166

−78.7

 

Ptc-miRn46

ACAUGUGCUGGGUAGGAGGAA

21(4)

scaffold_6:9390506:9390758:-

3’

253

−86.8

 

Ptc-miRn47

AGUGGCAUUGGAGGUAUCCC

297(18)

scaffold_1:22901250:22901371:-

3’

122

−34.7

D

Ptc-miRn48

UCUCAAGCCCAAAUUCGAUC

8(2)

scaffold_3:9383296:9383382:-

5’

87

−35

B

Ptc-miRn49

CAAGGAGUAAUUAGUGACAUC

974(1)

scaffold_9:7737213:7737443:+

5’

231

−63.3

 

Ptc-miRn50

UGAUAUGUGGCAUUCAAUCGA

2880(8)

scaffold_3:14915775:14915873:+

3’

99

−77.1

E

Ptc-miRn51a

GCCGAGCUCGGGGAUUGCG

84645(465)

scaffold_17:2344664:2344909:+

3’

246

−141.5

 

Ptc-miRn51b

GCCGAGCUCGGGGAUUGCG

84645(465)

scaffold_17:2357226:2357471:+

3’

246

−143

 

Ptc-miRn51c

GCCGAGCUCGGGGAUUGCG

84645(465)

scaffold_17:2307047:2307292:+

3’

246

−137.4

 

Ptc-miRn51d

GCCGAGCUCGGGGAUUGCG

84645(465)

scaffold_17:2279166:2279411:+

3’

246

−137.6

 

Ptc-miRn51e

GCCGAGCUCGGGGAUUGCG

84645(465)

scaffold_17:2268545:2268790:+

3’

246

−139.3

 

Ptc-miRn52

GGGGGUUGCUGUCAAGCAUAA

61(19)

scaffold_18:2804678:2804833:+

3’

156

−74.6

B

Ptc-miRn53

UAAAUCAAGCCCGGUACUUUU

10(2)

scaffold_11:15209261:15209374:-

5’

114

−42.6

 

Ptc-miRn54a

UUCAUUCCUCUUCCUAAAAUGG

1827(506)

scaffold_15:8556706:8556831:+

5’

126

−61

ABCE

Ptc-miRn54b

UUCAUUCCUCUUCCUAAAAUGG

1827(500)

scaffold_12:7706162:7706287:-

5’

126

−50.9

ABCDE

  1. ‘LM’, Length of miRNAs. ‘nt’, neuleotides. ‘LP’, Length of precursors. ‘A’, refer to [26]; ‘B’, refer to [11]; ‘C’, refer to [19]; ‘D’, refer to [15]; ‘E’, refer to [10]; ‘F’, refer to [18].