Table IV.

cis-Elements identified in the promoters of SA-induced genes

Analysis was performed on a subset of 450 genes with unambiguous probe-to-gene assignment. The number of appearances of each motif in promoters (−1,000 bp) of SA-induced genes (fobs) was compared to its frequency in promoters of genes of the whole genome (ftheor) by a general bootstrapping technique. Only motifs significantly over- or underrepresented (P < 0.05) are listed.

Motif DescriptionSearched MotifFound MotifsfobsftheorAlternativeP (fobs = ftheor)
TATCCAY, GATA-boxTATCCA3680.820.59Overrepresented2.7e-10
I-box, MYB-like familyGATAAG3350.740.55Overrepresented3.3e-8
TAG1/RTBP1-binding, MYB-like familyAAACCC2700.600.82Underrepresented4.1e-5
W-box, WRKY familyTTGACY7361.641.22Overrepresented9.0e-15
W-box-like, WRKY familyTTGACTT2280.510.32Overrepresented2.7e-12
bZipACGT2,4705.494.38Overrepresented1.5e-11
A-box bZip variantsBACGTA4440.990.74Overrepresented5.3e-6
G-box bZip variantsYACGTG3720.830.60Overrepresented1.1e-5
C-box bZip variantsYACGTC2400.530.36Overrepresented8.9e-11
ASF-1, TGA familyTGACG5211.160.87Overrepresented3.2e-10
ASF-1-like, TGA familyTGACGTG730.160.08Overrepresented1.2e-8
DRE/CRT core, DREB1AACCGACA350.080.05Overrepresented2.9e-2
GT repeatGTGTGTAT370.080.06Overrepresented3.5e-2