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Table 2 Distribution of major effect SNPs in different genic sites and regions in 48 sorghum accessions

From: SorGSD: a sorghum genome SNP database

Genotype

Type

Racial type

Geographic origin

Start codon

Stop codon

Splice sites

Gain

Lost

Variant

Gain

Lost

Retain

Donor

Acceptor

Region

BTx623

I

Complex

USA

0

0

0

0

0

0

0

0

0

Malisor84-7

I

Complex

Mali

380

16

1

130

39

10

28

32

742

ICSV745

I

Complex

India

1084

45

9

246

64

21

69

74

1643

EarlyHegari

L

Caudatum

Sudan

1281

35

12

282

81

18

69

69

1960

Cherekit

L

Caudatum

Ethiopia

1283

42

12

291

68

18

66

72

2011

SC103-14E

L

Guinea-Caudatum

South Africa

1014

39

8

244

72

20

51

75

1763

Macia

I

Caudatum

Mozambique

996

38

5

239

62

26

51

60

1661

SC108-14E

L

Caudatum

Ethiopia

1054

42

9

230

60

20

51

68

1604

SC237-14E

L

Caudatum

Sudan

1242

50

6

282

79

22

57

72

1807

B923296

I

Complex

Australia

770

26

9

199

53

19

53

72

1395

B963676

I

Complex

Australia

962

30

5

192

62

18

57

64

1510

M35-1

L

Durra

India

1048

39

5

246

68

21

66

74

1646

R931945-2-2

I

Complex

Australia

1703

74

15

331

81

29

88

110

2042

SC170-6-8

L

Caudatum

Ethiopia

1065

44

5

245

69

27

55

58

1631

SC326-6

L

Caudatum-Bicolor

Ethiopia-USA

1220

34

10

266

82

26

62

96

1831

SC56-14E

L

Caudatum-Nigricans

Sudan

1433

40

10

328

78

24

58

80

1946

SC62-14E

L

Complex

Kenya

1455

38

10

295

99

28

71

94

2250

E-Tian

I

Kafir

China

1430

41

14

228

65

25

57

66

1085

Rio

I

Kafir

USA

1273

47

16

259

72

21

65

75

1899

SS79

I

Kafir

Ethiopia

2602

78

21

419

116

37

102

130

2384

IS8525

L

Kafir

Ethiopia

1353

46

17

261

69

24

64

87

1858

Keller

I

Complex

USA

750

27

7

212

48

12

36

45

1302

RTx7000

I

Kafir-Caudatum

USA

1605

47

15

284

93

32

78

97

1948

IS3614-2

L

Guinea

Nigeria

1421

48

13

358

95

37

83

112

2586

Karper669

I

Complex

USA-Sudan

1362

52

11

301

93

24

63

94

2209

PI563516

I

Durra-Caudatum

Mali

1427

53

13

298

86

27

62

94

2032

QL12

I

Complex

Australia

1321

45

10

313

79

25

64

98

2097

IS9710

L

Caudatum

Sudan

1265

38

10

301

85

21

73

78

2161

KS115

I

Durra-Caudatum

USA

900

35

12

270

77

33

71

89

2111

Ji2731

L

Caudatum

China

1666

52

13

265

76

23

74

62

1474

AI4

I

Complex

China

1416

45

12

291

78

24

90

99

2409

LR9198

I

Complex

China

1735

47

10

331

95

27

103

107

2433

BTx642 

L

Durra

Ethiopia

2114

75

23

363

107

38

93

99

2486

SC35C-14E

L

Durra

Ethiopia

1402

48

16

317

89

32

84

94

2389

SC23-14E

L

Durra

Ethiopia

1587

55

14

384

107

31

87

108

2468

Yik.solate

L

Durra

Ethiopia

990

25

8

249

67

28

79

90

2328

IBC/E-38432

L

Durra

Ethiopia

1965

70

14

442

113

45

108

121

3342

PI585749

L

Durra-Bicolor

Mali

1930

65

17

388

109

43

95

130

2689

PI330272

W

Drummondii

Ethiopia

1865

56

11

458

123

49

100

148

3054

Zengada

W

Weedy

Ethiopia

1864

59

13

413

111

45

95

147

3162

Kilo

W

Weedy

Ethiopia

1058

35

5

294

73

32

85

106

2803

Greenleaf

W

Weedy

USA

1871

60

16

411

122

34

110

116

3038

PI226096

W

Weedy

Kenya

2767

76

16

495

145

48

148

148

3503

PI525695

M

Margaritiferum

Mali

2318

73

15

524

135

46

136

162

4082

PI586430

M

Margaritiferum

Sierra Leone

2525

82

15

562

144

47

138

175

4133

PI300119

W

Verticilliflorum

South Africa

4441

132

29

786

204

90

211

224

5756

AusTRCF317961

W

Verticilliflorum

Australia

2278

80

16

521

145

53

163

185

4814

Sorpr369-1

P

Propinquum

–

9859

249

42

1519

378

236

407

481

14288

Sorpr369-2

P

Propinquum

–

9169

241

41

1437

359

240

405

465

14181

  1. I improved variety; L landrace; W wild/weedy; M margaritiferum; P Sorghum propinquum