Table 2.
Reduction of total cis-element search space for identification of conserved TF-binding site clusters by restriction to phylogenetically conserved sequence regions.
| Gene | Number of TF binding sites in genomic sequences | Total number of TF binding sites of the two sequences (a) | TF binding sites in common within BLASTZ aligned regions (b) | % Reduction based on no. sharedcis-elements within BLASTZ -aligned sequence blocks (100—b/a%) | |||||
| Human | Mouse | ||||||||
| ADA | 2225 | 1740 | 3965 | 798 | 80 | ||||
| APEX | 1850 | 1721 | 3571 | 458 | 87 | ||||
| XRCC1 | 2276 | 2209 | 4485 | 469 | 90 | ||||
| ERCC2 | 1806 | 1051 | 2857 | 299 | 90 | ||||
| CD4 | 2609 | 2609 | 5218 | 910 | 83 | ||||
| PAX6 | 29398 | 27321 | 56719 | 12444 | 78 | ||||
| ATM | 12653 | 8753 | 21406 | 4093 | 81 | ||||
| MYO7A | 7492 | 5146 | 12638 | 3116 | 75 | ||||
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Examples of genes in which cis-element matrix hits are reduced 75% to 90%.
