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Table 3 Details of 71 genic-SSR loci showing polymorphism among 8 pigeonpea cultivars

From: Development of genic-SSR markers by deep transcriptome sequencing in pigeonpea [Cajanus cajan (L.) Millspaugh]

S. No.

Marker Id.

(SSR Motif)n

Product size

No. of alleles

PIC value

1

ASSR1

(GA)10

100

2

0.47

2

ASSR3

(AGAAAG)5

145

2

0.47

3

ASSR5

(AAATT)6

130

2

0.36

4

ASSR8

(AGA)9

140

2

0.50

5

ASSR9

(AGA)8

150

2

0.23

6

ASSR11

(CTC)7

140

2

0.23

7

ASSR12

(AACAC)6

165

2

0.38

8

ASSR13

(ATTAG)5

160

2

0.37

9

ASSR15

(CAA)8

150

2

0.38

10

ASSR16

(GTT)9

150

2

0.23

11

ASSR17

(CCTTCT)6

180

2

0.38

12

ASSR19

(TGTTCA)5

160

2

0.38

13

ASSR20

(AT)11

140

2

0.23

14

ASSR23

(CCTTCT)5

150

2

0.47

15

ASSR48

(AAGAGG)6

150

2

0.30

16

ASSR66

(CT)12

180

2

0.44

17

ASSR70

(GGTAGA)6

170

2

0.45

18

ASSR77

(CT)10

140

2

0.41

19

ASSR93

(CATTTG)5

170

2

0.47

20

ASSR97

(ATGGAC)8

150

3

0.66

21

ASSR100

(GGT)7

150

2

0.23

22

ASSR108

(GAT)7

150

2

0.23

23

ASSR109

(GAA)10

140

2

0.38

24

ASSR120

(CTT)7

160

2

0.38

25

ASSR148

(CAA)7

110

2

0.50

26

ASSR153

(GAG)8

150

2

0.23

27

ASSR155

(TGGACA)5

130

2

0.23

28

ASSR169

(TCA)7

160

2

0.23

29

ASSR182

(ATT)7

220

2

0.38

30

ASSR205

(ATGAAG)11

170

2

0.38

31

ASSR206

(GTAATA)6

150

2

0.47

32

ASSR207

(ATCT)5

190

2

0.23

33

ASSR221

(TCG)8

165

2

0.23

34

ASSR228

(CTAAGG)5

140

3

0.53

35

ASSR229

(TAAGGG)5

160

3

0.53

36

ASSR230

(GAGCAT)9

170

2

0.38

37

ASSR236

(ACTAGC)10

230

2

0.23

38

ASSR237

(GGTGAA)7

180

2

0.23

39

ASSR247

(CACCAA)6

180

2

0.38

40

ASSR253

(CCCAAG)6

150

2

0.23

41

ASSR258

(CCATA)5

140

2

0.23

42

ASSR277

(TCCTGT)5

130

2

0.50

43

ASSR280

(TGGCAT)5

170

2

0.23

44

ASSR281

(CAAATG)6

220

5

0.83

45

ASSR286

(TGTTCA)5

160

2

0.38

46

ASSR293

(AGA)7

130

2

0.38

47

ASSR295

(ATA)8

140

2

0.38

48

ASSR297

(GCCACC)5

180

2

0.38

49

ASSR304

(GTT)7

110

2

0.50

50

ASSR317

(GAGCAT)9

150

2

0.47

51

ASSR352

(TTTAA)6

130

2

0.47

52

ASSR363

(GCATCA)5

190

2

0.50

53

ASSR366

(CGT)8

140

2

0.47

54

ASSR379

(TTCATG)5

140

2

0.47

55

ASSR380

(TTTC)5

170

2

0.23

56

ASSR390

(GAGCAA)6

190

2

0.50

57

ASSR408

(CAC)6

190

2

0.37

58

ASSR416

(TGA)6

210

2

0.37

59

ASSR427

(CT)9

170

2

0.37

60

ASSR495

(CT)9

200

2

0.50

61

ASSR610

(GTG)6

150

2

0.50

62

ASSR613

(CCA)6

150

2

0.21

63

ASSR895

(ATT)6

150

2

0.22

64

ASSR911

(AAT)6

140

2

0.47

65

ASSR980

(AAC)6

150

2

0.37

66

ASSR1193

(CA)9

180

2

0.47

67

ASSR1432

(TTC)6

140

2

0.47

68

ASSR1486

(TTG)6

140

2

0.37

69

ASSR1689

(AAT)6

140

2

0.37

70

ASSR1737

(TA)9

150

2

0.50

71

ASSR1848

(CAT)6

150

3

0.59

 

Average

  

2.1

0.38

  1. Annealing temperature for all 71 markers was 55°C. *Primer details and gene annotation is shown in Additional file 4.