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Table 2 Prediction of candidate genes and promoter regions for the CRISPR/Cas9 system

From: Advances in genome editing technology and its promising application in evolutionary and ecological studies

Species

Gene

Promoter

Total numbers

Predicted numbers

Ratio (%)

Total numbers

Predicted

numbers

Ratio (%)

Anas.platyrhynchos

15634

12753

81.57

15561

12959

83.28

Anopheles.gambiae

12810

9079

70.87

12810

9866

77.02

Apis.mellifera

10675

7644

71.61

10663

6096

57.17

Arabidopsis.thaliana

27416

12978

47.34

27416

8866

32.34

Bombyx.mori

14623

12087

82.66

14622

11679

79.87

Bos.taurus

19994

14657

73.31

19994

16138

80.71

Caenorhabditis.elegans

20532

9759

47.53

20532

10270

50.02

Camponotus.floridanus

16705

10804

64.68

16605

9969

60.04

Canis.familiaris

19856

14489

72.97

19856

16172

81.45

Columba.livia

16652

12223

73.4

16637

14177

85.21

Crassostrea.gigas

26089

15767

60.44

26081

12811

49.12

Danio.rerio

26245

16500

62.87

26244

13476

51.35

Drosophila.melanogaster

13937

9061

65.01

13937

8825

63.32

Equus.caballus

20449

14108

68.99

20447

16520

80.79

Gallus.gallus

16516

12305

74.5

16516

14159

85.73

Glycine.max

42909

18433

42.96

42909

13433

31.31

Harpegnathos.saltator

18429

9741

52.86

18384

11617

63.19

Heliconius.melpomene

12669

10673

84.25

12663

10146

80.12

Heter.glaber

22558

14949

66.27

22556

16823

74.58

Macaca.fascicularis

21283

15322

71.99

21278

16712

78.54

Macaca.mulatta

21905

15115

69

21894

17238

78.73

Oryza.sativa

35679

10223

28.65

35679

15028

42.12

Schistosoma.mansoni

10772

7117

66.07

10769

9206

85.49

Sus.scrofa

21630

13560

62.69

21624

15960

73.81

Tupaia.belangeri

15471

12741

82.35

15471

12906

83.42

Xenopus.tropicalis

18442

14188

76.93

18431

14048

76.22

  1. Note: 26 organisms were selected for in silico prediction of CRISPR/Cas9 candidate editable genes and promoter regions. Promoter regions are defined as the 2 kb region upstream and downstream of genes. A N20-NGG sequence pattern is used to identify the CRISPR/Cas9 target sits. Then, these target sites are BLAST against both gene and promoter regions to eliminate off-target sites using strict criteria, where a candidate editable site is defined when only the seed region (12 bps adjacent to PAM) is unique.
  2. BLAST, Basic Local Alignment Search Tool; CRISPR, Clustered Regularly Interspaced Short Palindromic Repeats; PAM, Protospacer Adjacent Motif.
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