Skip to main content

Table 1 Organisms, genome versions, and PUF quantification

From: Plant Co-expression Annotation Resource: a web server for identifying targets for genetically modified crop breeding pipelines

Organism

Genome version

PUF quantification

ProtocolA

Protocol B

Protocol C

Protocol D

Protocol E

Protocol F

Amaranthus hypochondriacus

v1.0

873

3

3

4

0

2

Amborella trichopoda

v1.0

52

0

4

0

0

3

Ananas comosus

v3

1790

0

7

4

0

3

Aquilegia coerulea

v3.1

2214

10

38

2

0

25

Arabidopsis halleri

v1.1

362

0

13

7

0

8

Arabidopsis lyrata

v2.1

609

0

4

4

0

3

Arabidopsis thaliana

TAIR10

322

0

150

17

0

128

Boea hygrometrica

GCA_001598015.1

37

0

2

0

0

0

Boechera stricta

v1.2

557

4

14

18

0

10

Brachypodium distachyon

v3.1

2018

2

73

6

0

49

Brachypodium stacei

v1.1

1060

1

41

2

1

33

Brassica oleracea capitata

V1.0

390

0

11

2

0

0

Brassica rapa

FPsc

565

1

21

7

0

13

Capsella grandiflora

v1.1

202

0

14

9

0

9

Capsella rubella

v1.0

2

0

10

0

0

10

Carica papaya

ASGPBv0.4

3333

0

0

5

0

0

Citrus clementenina

v1.0

7

0

24

0

0

20

Citrus sinensis

v1.1

5

0

27

1

0

23

Cucumis sativus

v1.0

995

0

20

5

0

18

Daucus carota

v2.0

8

0

0

0

0

0

Eucalyptus grandis

v2.0

56

0

23

0

0

21

Eutrema salsugineum

v1.0

3

0

8

0

0

8

Fragaria vesca

v1.1

3142

20

1

2

0

0

Glycine max

Wm82.a2.v1

20

0

103

5

0

98

Gossypium raimondii

v2.1

18

0

62

0

0

46

Kalanchoe fedtschenkoi

v1.1

1933

14

53

5

1

40

Kalanchoe laxiflora

v1.1

1576

9

99

7

1

71

Linum usitatissimum

v1.0

1542

27

8

7

1

3

Malus domestica

v1.0

5025

5

48

7

0

27

Manihot esculenta

v6.1

20

0

40

0

0

35

Medicago truncatula

Mt4.0v1

229

0

50

0

0

37

Mimulus guttatus

v2.0

715

2

36

9

0

27

Musa acuminata

v1

3759

2

2

11

0

0

Oropetium thomaeum

v1.0

2551

8

7

10

1

4

Oryza sativa

v7_JGI

709

0

17

82

0

17

Panicum hallii

v2.0

22

0

63

2

0

45

Panicum virgatum

v1.1

10,211

6

117

31

1

59

Phaseolus vulgaris

v2.1

123

0

36

5

0

35

Populus trichocarpa

v3.0

1466

0

124

8

0

94

Prunus persica

v2.1

16

0

42

2

0

34

Ricinus communis

v0.1

18

0

0

1

0

0

Salix purpurea

v1.0

1539

0

0

10

0

0

Setaria italica

v2.2

1492

1

59

0

1

38

Setaria viridis

v1.1

1896

1

64

1

1

40

Solanum lycopersicum

iTAG2.4

2694

0

1

1

0

0

Solanum tuberosum

v4.03

3353

2265

3303

4

4

887

Sorghum bicolor

v3.1.1

14

0

18

0

0

11

Spirodela polyrhiza

v2

1104

13

17

11

0

8

Theobroma cacao

v1.1

151

4

1448

0

0

25

Trifolium pratense

v2

1630

6

12

8

0

10

Vitis vinifera

Genoscope.12X

123

1

1

0

0

0

Zea mays

284_AGPv3

9674

3

67

1042

1

60

Zostera marina

v2.2

41

1

164

0

0

143

Total

53

72,266

2409

6569

1364

13

2280