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Table 2 Novel miRNAs identified in Thellungiella

From: Genome-wide identification of Thellungiella salsuginea microRNAs with putative roles in the salt stress response

Novel miRNA

Novel miRNA sequence

Length

miRNA count

Genomic location of pre-miRNA

MFE

miR*

miR* count

CL

TL

CL

TL

tsa-miRn1

GGAGGAUGAUACAAGCUCUCAUA

23

24

0

scaffold_10:7369671:7369761:+

-18.5

CUUCAACAUUAGAAUGCAUGUAUC

1

0

tsa-miRn2

UAGGAAUCUGUGCUCAAACCAC

22

18

22

scaffold_11:1867622:1867724:+

-57.1

UUGAGCACAGAUUUCUACA

1

1

tsa-miRn3-5p

UUGGGGGUAAGAGUAUUAUAC

21

78

72

scaffold_13:6097671:6097798:-

-46.1

UAUAAUACCCUUAAACCCAAU

10

10

tsa-miRn3-3p

UAUAAUACCCUUAAACCCAAU

21

10

10

UUGGGGGUAAGAGUAUUAUAC

78

72

tsa-miRn4

UGUUCGCCGGAAAAUAACCAG

21

47

55

scaffold_15:2449702:2449784:+

-48.2

GGUUAUUUUCCGGCGAAGCAGA

1

0

tsa-miRn5

UUUUAAAACUGAAAACGUAAU

21

92

77

scaffold_15:2733677:2733793:+

-45.3

UACGUUAUCAGUUUUAAAACA

1

1

tsa-miRn6

AUUGGAGUUGAUAUAAUGCAG

21

0

10

scaffold_9:4431521:4431709:+

-71.2

CAACCUGCAUUAUAUCAACUC

0

1

tsa-miRn7

CAAGGCAGAAGAAGGCUGUUU

21

1927

0

scaffold_19:2418388:2418480:+

-63.1

ACAGCCUCUUCUUCCUUGUU

1

0

tsa-miRn8-5p

AAUGAAUGAUGCGGUAGACAAAU

23

123

71

scaffold_1:6999873:6999998:-

-36

UAGCUUCCGACUCAUUCAUCCA

13

9

tsa-miRn8-3p

UAGCUUCCGACUCAUUCAUCCA

22

13

9

AAUGAAUGAUGCGGUAGACAAAU

123

71

tsa-miRn9

AGGAGAGUUUUGGUGUAGCAA

21

21

23

scaffold_229:434:568:-

-30.7

UUCUAUGCUCAGAACUCCUUCUU

0

1

tsa-miRn10

UGAAUUUGAUUUUAGACAGGA

21

26

0

scaffold_2:7409777:7409908:+

-57.1

UGUCUGAAAUCAGGUUCAGGUA

1

0

tsa-miRn11-3p

UGAGUCGUCAAUCAGUAAGGU

21

228

247

scaffold_2:8810421:8810518:+

-34.9

AUUACUUGUUGACGAUUCCUU

252

133

tsa-miRn11-5p

AUUACUUGUUGACGAUUCCUU

21

252

133

scaffold_2:8810421:8810518:+

UGAGUCGUCAAUCAGUAAGGU

228

247

tsa-miRn12

UGAUAGCAGUAGUUUCGUCUA

21

192

172

scaffold_2:856191:856302:-

-23.5

AGAGAUCGGAGCUUUGUUGG

1

0

tsa-miRn13

UAGUGAAAUUGGAAAGUUGCC

21

3777

2846

scaffold_2:6151436:6151550:-

-49

AACGACAGCUUUCCUGAUUCCA

2

1

tsa-miRn14

UCAUGAAGGAUCUGAGAUUGA

21

78

0

scaffold_2:18154827:18154925:-

-48.1

CUCCAGUCUCAUACUCUUCAU

2

0

tsa-miRn15

CUAGGGUUCCAGAAUUGAGGCUA

23

57

32

scaffold_3:8786082:8786170:+

-26.4

GCUUUAAUUCGGAGUUGGUCGGC

1

1

tsa-miRn16

UGUGAUCCUCAGAUAGACGUACA

23

4

10

scaffold_3:10218595:10218739:+

-38.3

AGUUGUCAUUAUAUCUCUGAUCGC

0

2

tsa-miRn17

ACCCCAAACCAGCUCAGACAA

21

142

263

scaffold_3:2561950:2562105:-

-67.7

CAGCUUAUUUGGGAUUGGAGGUC

0

3

tsa-miRn18

UGGAUUUAGAAUAAUGGUGGCUA

23

127

118

scaffold_4:1893254:1893541:+

-47.63

AUCAUUGCUCUGAUACCAUGUUGA

2

3

tsa-miRn19

AAGGCUGUGAAUUGUUUUGGC

21

167

116

scaffold_7:7785014:7785113:-

-57.26

CGAAACAAUUCACAGUCUUGA

0

1

tsa-miRn20-3p

AAAGCAUGUGAGUACUUCGUA

21

639

523

scaffold_9:9328524:9328666:-

-71.2

UGAAAUAUUCACAUGCUUUCG

357

439

     

scaffold_9:9328524:9328666:-

-71.2

   

tsa-miRn20-5p

UGAAAUAUUCACAUGCUUUCG

21

357

439

 

AAAGCAUGUGAGUACUUCGUA

639

523

tsa-miRn21

UGAAAGGAAACAUUGAUGUUU

21

0

82

scaffold_15:1338317:1338445:-

-50.1

ACAACAGUGUUUUCUUUCACA

0

9

tsa-miRn22

UUGUGCAAGACUGAGAAGCAA

21

0

10

scaffold_5:15200075:15200174:+

-57.5

UCUUCUUCCUCUUGCACAACC

0

1

  1. Novel miRNA is the name of detected novel miRNAs. -5p and -3p means the novel miRNA and miR*. Genomic locations of pre-miRNA are listed: The T. salsuginea genome sequence was downloaded from the T. salsuginea Sequencing Resource: website ftp://ftp.jgi-psf.org/pub/compgen/phytozome/v9.0/Thalophila/assembly/). +, sense strand. -, anti-sense strand.