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Table 2 Over-represented putative motifs/binding sites in the 1kb upstream promoter region of genes down/up-regulated in response to Xoo

From: Antagonistic, overlapping and distinct responses to biotic stress in rice (Oryza sativa) and interactions with abiotic stress

Final motifSource Name Genome (35,811) Down-reg. (514) Up-reg. (1163)
ACGTGG1 ABRE/GBF1/2/3 6725 (19%) 76 (15%) 241 (21%)
CACGTG1/2 ABRE/G-box/NAC 6701 (19%) 91 (18%) 251 (22%)
CGTGTA1 ABRE-like 4266 (12%) 63 (12%) 164 (14%)
ACACGT1 ACE 5764 (16%) 87 (17%) 239 (21%)
GACACG1/2 ACE/NAC 5249 (15%) 69 (13%) 221 (19%)
CCACGT1 CBF2/GBF1/2/3 7265 (20%) 103 (20%) 289 (25%)
AAAAAT1 CCA1 2 BS in CAB1 24552 (69%) 357 (69%) 836 (72%)
(T/C)TCCCG1/2 E2F 6842 (19%) 89 (17%) 250 (21%)
(T)CCCGC(C )1 E2F 5779 (16%) 79 (15%) 215 (18%)
AGCCGC1 ERE/ERF 6679 (19%) 81 (16%) 248 (21%)
(A)GAAGC(T)1 HSEs 7037 (20%) 108 (21%) 261 (22%)
(A)ACGTT(C )1 HSEs 2792 (8%) 47 (9%) 116 (10%)
CGTTCT1 HSEs 4198 (12%) 70 (14%) 163 (14%)
(A)GCTTC(T)1 HSEs 7588 (21%) 121 (24%) 297 (26%)
GATCGA1 Nonamer 9377 (26%) 137 (27%) 344 (30%)
AAACCC1 TELO-box 10238 (29%) 148 (29%) 404 (35%)
TACGTG1 ABRE/Z-box 5252 (15%) 73 (14%) 198 (17%)
AGCCGT2 AtERF-3 4565 (13%) 70 (14%) 172 (15%)
(A)CGTGT(C )2 ABI5/bZIP 5508 (15%) 86 (17%) 224 (19%)
ACGTAG2 ABI5/bZIP 3974 (11%) 50 (10%) 149 (13%)
TTAGTT2 AtMYB44 11540 (32%) 161 (31%) 412 (35%)
CACGT(T/C )2 NAC 4410 (12%) 63 (12%) 176 (15%)
(G/T/A)CCACG2 NAC 5583 (16%) 75 (15%) 220 (19%)
(C/A)ACACG2 NAC 5418 (15%) 84 (16%) 226 (19%)
GTCACG2 NAC 4111 (11%) 62 (12%) 157 (13%)
CACGCG2 NAC 6573 (18%) 80 (16%) 267 (23%)
CGCACG2 NAC 6325 (18%) 89 (17%) 230 (20%)
CACGAA2 NAC 5705 (16%) 86 (17%) 218 (19%)
(A)TGCAT(T)2 ABI3 9558 (27%) 162 (32%) 297 (26%)
ATGCAA2 ABI3 10545 (29%) 172 (33%) 335 (29%)
CACGAG2 NAC 5604 (16%) 99 (19%) 186 (16%)
AATGCA1 L1-box 8984 (25%) 149 (29%) 289 (25%)
GAAAAA2 GT-3b 21164 (59%) 328 (64%) 706 (61%)
CACATG1 AtMYC2 BS in RD22 10380 (29%) 172 (33%) 312 (27%)
(G)CAACA(G)1 RAV1-A 8308 (23%) 151 (29%) 273 (23%)
CGTACA1/2 SBP-box/SPL 3940 (11%) 77 (15%) 138 (12%)
(T)CAAGT(G)1 SORLIP3 7327 (20%) 123 (24%) 247 (21%)
TGACGA2 WRKY18 6025 (17%) 107 (21%) 193 (17%)
AAGCTT1 HSEs 7981 (22%) 141 (27%) 295 (25%)
CACG(T/C)A2 ABI5/NAC/bZIP 6626 (19%) 118 (23%) 260 (22%)
  1. Source: 1= [41, 42], 2=[41, 42].
  2. Infection in rice.