Table 1 Distributions of genes in the three main GO domains for the whole genome and assembled viral database

GO Cellular Component

cell wall

605

2.42

302

4.94

2.04

chloroplast

2941

11.78

1308

21.39

1.81

cytosol

1662

6.66

918

15.01

2.25

ER

425

1.70

200

3.27

1.92

extracellular

454

1.82

233

3.81

2.09

Golgi apparatus

249

1.00

109

1.78

1.79

mitochondria

1123

4.50

425

6.95

1.54

nucleus

2504

10.03

936

15.30

1.53

other cellular components

4405

17.65

1056

17.27

0.98

other cytoplasmic components

3384

13.56

1695

27.71

2.04

other intracellular components

4310

17.27

1914

31.29

1.81

other membranes

3373

13.52

1358

22.20

1.64

plasma membrane

1862

7.46

908

14.85

1.99

ribosome

472

1.89

232

3.79

2.01

unknown cellular components

9632

38.60

1024

16.74

0.43

Total

24956

100.00

6116

100.00

GO Molecular Function

DNA or RNA binding

2894

10.59

693

10.03

0.95

hydrolase activity

2959

10.82

913

13.22

1.22

kinase activity

1342

4.91

426

6.17

1.26

nucleic acid binding

1467

5.37

216

3.13

0.58

nucleotide binding

2114

7.73

655

9.48

1.23

other binding

4529

16.57

1258

18.21

1.10

other enzyme activity

3200

11.70

1157

16.75

1.43

other molecular functions

1003

3.67

311

4.50

1.23

protein binding

2426

8.87

1090

15.78

1.78

receptor binding or activity

271

0.99

88

1.27

1.29

structural molecule activity

536

1.96

252

3.65

1.86

transcription factor activity

1681

6.15

450

6.52

1.06

transferase activity

2509

9.18

870

12.60

1.37

transporter activity

1266

4.63

420

6.08

1.31

unknown molecular functions

10851

39.69

1651

23.90

0.60

Total

27340

100.00

6907

100.00

GO Biological Process

cell organization and biogenesis

1245

4.44

440

6.23

1.40

developmental processes

2309

8.24

758

10.73

1.30

DNA or RNA metabolism

444

1.58

114

1.61

1.02

electron transport or energy pathways

294

1.05

151

2.14

2.04

other biological processes

2157

7.70

965

13.66

1.78

other cellular processes

12254

43.72

3950

55.93

1.28

other metabolic processes

12875

45.93

4092

57.94

1.26

protein metabolism

4256

15.18

1252

17.73

1.17

response to abiotic or biotic stimulus

2175

7.76

1037

14.68

1.89

response to stress

2424

8.65

1097

15.53

1.80

signal transduction

1366

4.87

431

6.10

1.25

transport

2080

7.42

726

10.28

1.39

unknown biological processes

11282

40.25

1800

25.48

0.63

Total

28031

100.00

7063

100.00