Table 1.
Model organism genomes analyzed and the number of OPEN ZFN target sites identified
| Organism | Source 1 | Total # of OPEN target sites2 |
Total # of transcripts2 |
ZFN targetable transcripts2 |
Avg. # ZFN target sites per transcript2 |
GC Content |
|
|---|---|---|---|---|---|---|---|
| # | % | ||||||
| Saccharomyces cerevisiae | SGD | 31,822 | 6,685 | 5,810 | 87 | 5.5 | 38.3 |
| Chlamydomonas reinhardtii | ChlamyCyc | 330,136 | 15,496 | 14,423 | 93 | 22.9 | 58.1 |
| Arabidopsis thaliana | TAIR | 171,409 | 33,200 | 30,193 | 91 | 5.7 | 35.5 |
| Caenorhabditis elegans | WormBase | 112,725 | 28,202 | 23,861 | 85 | 4.7 | 34.2 |
| Drosophila melanogaster | FlyBase | 185,863 | 21,736 | 20,259 | 93 | 9.2 | 40.9 |
| Danio rerio | Ensembl | 214,809 | 27,305 | 25,918 | 95 | 8.3 | 35.9 |
| Homo sapiens | Ensembl | 670,597 | 71,913 | 66,170 | 92 | 10.1 | 37.1 |
1 Data Source URLs: SGD - http://www.yeastgenome.org/
ChlamyCyc - http://chlamyto.mpimp-golm.mpg.de/chlamycyc/index.jsp
TAIR - http://www.arabidopsis.org/
WormBase - http://www.wormbase.org/
FlyBase - http://flybase.org/
Ensembl Danio rerio - http://uswest.ensembl.org/Danio_rerio/Info/Index
Ensembl Homo sapiens- http://uswest.ensembl.org/Homo_sapiens/Info/Index
2 "Transcripts" refers to protein encoding transcripts mapped onto chromosomes (i.e., scaffolds are not included).
Note: For Chlamydomonas reinhardtii the average number of ZFN target sites per transcript is very high. This likely reflects the increased GC content of this genome.