Table 1.
Comparisons of Hox cis-regulatory elements and Lab complex formation. Probes are listed from strongest (Top) to weakest (Bottom) in terms of Lab complex formation. The Exd (blue), Lab (red), and Hth (yellow) sites are listed in the same direction for each probe. The orientation of the Hth site relative to the Exd/Lab sites are denoted by colored arrows (same colors as sites). The PWM score of each sample is listed for the Bacterial One-hybrid and SELEX approaches. Totals are calculated by summating each PWM score.
| Probe |  |
Hth | Orientation | Bacterial One-hybrid PWM Score | SELEX PWM Score | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Exd | Lab | Hth | Total | Exd/Lab | Hth | Total | |||||
| Strongest | Hoxb2-PP2 |  |
TGACAG |  |
-3.06 | -0.57 | 5.84 | 2.21 | 7.00 | 8.05 | 15.05 |
 |
Lab48/95 |  |
TGACAG |  |
3.89 | -4.91 | 5.84 | 4.82 | 2.94 | 8.05 | 10.99 |
| Hoxb1 R3-PM2 |  |
TGGCAG | |
0.77 | -4.88 | 1.63 | -2.48 | 4.74 | 4.05 | 8.79 | |
| Hoxa2 PM-PH2 |  |
TGACAG |  |
-0.28 | -5.71 | 5.84 | -0.15 | 0.57 | 8.05 | 8.62 | |
| EVIII |  |
TGACTG |  |
-3.06 | 4.27 | 1.98 | 3.19 | 4.34* | 3.88 | 8.22* | |
| Weakest | Hoxa3-PHP1 |  |
TGACAA | |
-4.92 | 2.87 | 5.84 | 3.79 | 2.48 | 3.48 | 5.96 |
denotes that the PWM calculated the Exd/Lab value using the reverse complement of the listed site such that the Exd site is TAAT and the Lab site is TGATCA. Note that if the reverse complement site is used, the relative orientation of the Exd/Lab site to the Hth site would change.