Table 1.
Multiple alignments in combination with multiTF were used to analyze the transcription factor binding site distribution of functionally characterized sites
|
|
230 kb PAX6 |
155 kb NKX2.5 |
150 kb Pax9/Nkx2.9 |
||
|---|---|---|---|---|---|
| Kleinjan DA, 2004
|
Brown CO, 2004
|
Santagati F, 2003
|
|||
| TFBS
|
PAX6
|
SMAD
|
GATA
|
Gli
|
|
| human | 209 | 2027 | 1834 | 652 | |
| + mouse | 15 | 60 | 82 | 84 | |
| + rat | 15 | 59 | 63 | 61 | |
| + chicken | 3 | 3 | 10 | 5 | |
| + frog | 1 + 1 | 1 + 2 | 2 + 3 | 1 + 1 | |
| + fish*
|
1
|
0
|
0
|
1
|
|
-
With each additional species, the number of predicted sites was reduced. The addition of frog and fish mostly identified only the functionally known sites (in bold).
-
↵* Fugu rupripes, Fugu tetraodon or zebrafish sequences were used interchangeably based on coverage
