Skip to main content

Table 3 Prediction of candidate genes and promoter regions for the TALEN 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 15105 96.62 15561 14523 93.33
Anopheles.gambiae 12810 10760 84 12810 11547 90.14
Apis.mellifera 10675 7718 72.3 10663 6778 63.57
Arabidopsis.thaliana 27416 21937 80.02 27416 24224 88.36
Bombyx.mori 14623 13592 92.95 14622 13303 90.98
Bos.taurus 19994 18992 94.99 19994 19445 97.25
Caenorhabditis.elegans 20532 10634 51.79 20532 11098 54.05
Camponotus.floridanus 16705 12882 77.11 16605 12452 74.99
Canis.familiaris 19856 18786 94.61 19856 19164 96.51
Columba.livia 16652 14719 88.39 16637 15601 93.77
Crassostrea.gigas 26089 22773 87.29 26081 23249 89.14
Danio.rerio 26245 23180 88.32 26244 24295 92.57
Drosophila.melanogaster 13937 10281 73.77 13937 11241 80.66
Equus.caballus 20449 18631 91.11 20447 19721 96.45
Gallus.gallus 16516 14912 90.29 16516 15445 93.52
Glycine.max 42909 36403 84.84 42909 40997 95.54
Harpegnathos.saltator 18429 12766 69.27 18384 13933 75.79
Heliconius.melpomene 12669 11049 87.21 12663 10595 83.67
Heter.glaber 22558 21214 94.04 22556 21839 96.82
Macaca.fascicularis 21283 20405 95.87 21278 20846 97.97
Macaca.mulatta 21905 20248 92.44 21894 21292 97.25
Oryza.sativa 35679 28939 81.11 35679 31818 89.18
Schistosoma.mansoni 10772 9750 90.51 10769 9961 92.5
Sus.scrofa 21630 19611 90.67 21624 20321 93.97
Tupaia.belangeri 15471 14883 96.2 15471 14716 95.12
Xenopus.tropicalis 18442 17460 94.68 18431 17860 96.9
  1. Note: 26 organisms were selected for in silico prediction of TALEN 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; TALEN, Transcription Activator-Like Effector Nuclease.