Table 1

PS2 enhancer functional divergence correlates with sequence constraint

Sequence analysis

Functional test

Species compared

Conservation P value

Species assayed

Relative enhancer strength

PS1

PS2

PS1

PS2

Human/5 primates

4.8 × 10^-5

10^-5

Human

0.9

5.1

Human/lemur

~1

0.76

Lemur

ND

2.6

Human/mouse

~1

~0.99

Mouse

ND

1.5

Human/dog

0.28

0.45

Dog

ND

2.6

Conservation P values are calculated using Gumby [12] under the null hypothesis of evolution at the neutral (background) rate. Low P values indicate that the null model of neutrality should be rejected, with the lowest P values identify the most significantly conserved sequences. The sequences analyzed for human-mammal conservation or enhancer activity correspond to the Gumby predicted conserved sequence and approximately 200 base pairs of flanking sequence on either side (see Materials and methods). Enhancer strength is shown as fold increase over promoter alone in luciferase assays in 293T cells. ND, not done.

Wang et al. Genome Biology 2006 7:R68   doi:10.1186/gb-2006-7-8-r68