Table 3

Comparison of gene content between grapevine whole-genome and segmentally duplicated regions

chr

total genes

full dup genes

chr gene density

full dup gene density

ratio of densities


chr1

1,399

72

6.07

2.63

0.43

chr2

976

93

5.20

3.07

0.59

chr3

1,104

143

5.71

3.70

0.65

chr4

1,363

95

5.71

2.88

0.50

chr5

1,435

138

5.74

3.74

0.65

chr6

1,289

66

5.99

2.30

0.38

chr7

1,357

59

6.45

2.53

0.39

chr8

1,488

67

6.65

3.30

0.50

chr9

1,136

166

4.94

2.91

0.59

chr10

842

100

4.64

2.93

0.63

chr11

1,082

57

5.46

2.64

0.48

chr12

1,263

175

5.56

4.02

0.72

chr13

1,281

150

5.25

3.27

0.62

chr14

1,625

153

5.37

3.38

0.63

chr15

957

122

4.71

2.72

0.58

chr16

1,048

140

4.75

2.53

0.53

chr17

1,006

54

5.87

2.20

0.37

chr18

1,796

143

6.12

3.14

0.51

chr19

1,200

192

5.00

3.30

0.66

Tot_nonrandom

23,647

2,185

5.55

3.06

0.55

chr1_random

7

1

1.23

0.73

0.60

chr3_random

28

7

2.29

2.35

1.03

chr4_random

5

-

6.56

-

-

chr5_random

10

-

2.37

-

-

chr7_random

73

8

5.04

5.71

1.13

chr9_random

4

2

0.82

1.46

1.78

chr10_random

52

12

6.59

3.95

0.60

chr11_random

11

-

3.89

-

-

chr12_random

36

6

2.30

1.49

0.65

chr13_random

156

47

4.77

4.35

0.91

chr16_random

28

26

3.78

3.87

1.02

chr17_random

15

3

1.81

2.38

1.32

chr18_random

211

44

4.08

3.22

0.79

Tot_random

636

156

3.77

3.35

0.89

Tot_placed

24,283

2,341

5.48

3.08

0.56

chrUn

2,063

248

4.78

2.79

0.58

Tot_whole

26,346

2,589

5.42

3.05

0.56


Number of total genes (total genes), number of fully duplicated genes (full dup genes), chromosome gene density (chr gene density), density of fully duplicated genes in duplicated regions (full dup gene density), and ratio between full dup gene density and chr gene density (ratio of densities) are shown for each chromosome, all nonrandom chromosomes, all random chromosomes, all nonrandom and random chromosomes, and for the whole genome. Gene density is calculated as the average number of genes present in 100 kb of genomic sequence.

Giannuzzi et al. BMC Genomics 2011 12:436   doi:10.1186/1471-2164-12-436

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