| Matrix_335 | HSFB2A | Not Available | | 88.68% |
| Matrix_163 | AT2G20110 | Not Available | | 68.82% |
| Matrix_513 | SOL1; TSO1; TCX2 | Not Available | | 67.72% |
| Motif_634 | ANAERO4CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1) | | 61.72% |
| Motif_213 | ZML2 | The CRYPTOCHROME1-Dependent Response to Excess Light Is Mediated through the Transcriptional Activators ZINC FINGER PROTEIN EXPRESSED IN INFLORESCENCE MERISTEM LIKE1 and ZML2 in Arabidopsis | | 60.61% |
| Matrix_492 | ETT | Not Available | | 60.19% |
| Motif_166 | RAP2.2 | Transcription factor RAP2.2 and its interacting partner SINAT2: stable elements in the carotenogenesis of Arabidopsis leaves | | 58.85% |
| Matrix_258 | WOX13 | Not Available | | 58.11% |
| Matrix_451 | STY1 | Not Available | | 57.89% |
| Motif_394 | AtTINY2 | Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana | | 56.60% |
| Motif_361 | SORLREP4AT | one of Sequences Over-Represented in Light-Repressed Promoters (SORLREPs) in Arabidopsis; Computationally identified phyA-repressed motifs; Common in circadian-regulated promoters; Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray data | | 55.89% |
| Matrix_240 | AT4G29000 | Not Available | | 55.41% |
| Matrix_328 | AT1G76580 | Not Available | | 55.36% |
| Matrix_193 | RAV1 | Not Available | | 55.00% |
| Matrix_265 | NGA3 | Not Available | | 55.00% |
| Matrix_321 | HRD | Not Available | | 54.55% |
| Matrix_433 | ATERF1 | Not Available | | 54.54% |
| Motif_587 | WRKY18 | Identification of genes encoding receptor-like protein kinases as possible targets of pathogen- and salicylic acid-induced WRKY DNA-binding proteins in Arabidopsis | | 54.37% |
| Matrix_312 | ARF11; MP; ARF6; IAA21; ARF8; ARF4 | Not Available | | 54.04% |
| Matrix_446 | LBD16 | Not Available | | 53.96% |
| Matrix_341 | HMGA | Not Available | | 53.80% |
| Motif_348 | WBBOXPCWRKY1 | WB box; WRKY proteins bind specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box; Found in amylase gene in sweet potato, alpha-Amy2 genes in wheat, barley, and wild oat, PR1 gene in parsley, and a transcription factor gene in Arabidopsis | | 53.71% |
| Matrix_227 | AT1G64620 | Not Available | | 53.53% |
| Matrix_489 | RAV1 | Not Available | | 53.43% |
| Motif_496 | JASE1ATOPR1 | JASE1found in promoter of Arabidopsis thaliana 12-oxo-phytodienoic acid-10,11-reductase (OPR1) gene; Located between -179 and -170; Involved in up-regulation by both senescence and JA;Identical promoter elements are involved in regulation of the OPR1 gene by senescence and jasmonic acid in Arabidopsis | | 53.41% |
| Matrix_87 | AT1G19000 | Not Available | | 53.32% |
| Motif_49 | TATAPVTRNALEU | TATA-like motif; A TATA-like sequence found in Phaseolus vulgaris tRNALeu gene promoter; Frequently observed upstream of plant tRNA genes; Found in maize glycolytic glyceraldehyde-3-phospate dehydrogenase 4 (GapC4) gene promoter; Binding site of TATA binding protein (TBP) | | 53.11% |
| Matrix_58 | WRKY55; ATWRKY54; WRKY46; WRKY70; AtWRKY41; WRKY53; WRKY30 | Not Available | | 52.99% |
| Matrix_20 | ANAC030; NST1; NAC066 | Not Available | | 52.89% |
| Motif_375 | ERELEE4 | ERE (ethylene responsive element) of tomato E4 and carnation GST1 genes; GST1 is related to senescence; Found in the 5'-LTR region of TLC1.1 retrotransposon family in Lycopersicon chilense; ERE motifs mediate ethylene-induced activation of the U3 promoter region | | 52.77% |
| Matrix_367 | REM1 | Not Available | | 52.73% |
| Matrix_430 | TOE2 | Not Available | | 52.58% |
| Matrix_444 | AT1G19485; AT4G17950 | Not Available | | 52.56% |
| Matrix_268 | EMB2749; VND5; SMB; VND1; ANAC076; NAC101; ANAC105 | Not Available | | 52.39% |
| Matrix_479 | TOE1 | Not Available | | 52.29% |
| Motif_138 | RAP2.2 | Transcription factor RAP2.2 and its interacting partner SINAT2: stable elements in the carotenogenesis of Arabidopsis leaves | | 52.23% |
| Matrix_81 | YAB1 | Not Available | | 52.03% |
| Matrix_424 | MYB59 | Not Available | | 52.00% |
| Matrix_382 | AT3G04850 | Not Available | | 52.00% |
| Matrix_388 | SNZ; SMZ; TOE2 | Not Available | | 51.85% |
| Matrix_59 | AT4G00238; AT4G00250 | Not Available | | 51.71% |
| Matrix_17 | WRKY22 | Not Available | | 51.69% |
| Matrix_151 | ASIL1 | Not Available | | 51.48% |
| Matrix_377 | AT1G75490; DREB2C; AT2G40350; AT5G18450 | Not Available | | 51.38% |
| Matrix_308 | INO | Not Available | | 51.36% |
| Matrix_474 | ANAC014; ANAC062; NTL9; TIP | Not Available | | 51.31% |
| Matrix_80 | BIM1 | Not Available | | 51.19% |
| Motif_167 | SBP-box promoter motif | Molecular characterisation of the Arabidopsis SBP-box genes | | 51.08% |
| Matrix_212 | ATHB-12 | Not Available | | 51.07% |
| Matrix_284 | KAN2; KAN3; KAN; KAN4 | Not Available | | 51.04% |
| Matrix_204 | WOX13 | Not Available | | 51.04% |
| Matrix_285 | DDF1 | Not Available | | 50.99% |
| Matrix_167 | ZAT6 | Not Available | | 50.91% |
| Matrix_75 | WRKY29 | Not Available | | 50.86% |
| Matrix_515 | ddf2; ATCBF3; CBF1; CBF4 | Not Available | | 50.76% |
| Motif_490 | PROLAMINBOXOSGLUB1 | Prolamine box found in the rice GluB-1 gene promoter; Involved in quantitative regulation of the GluB-1 gene | | 50.71% |
| Matrix_238 | WRKY59; WRKY23; WRKY68 | Not Available | | 50.48% |
| Matrix_142 | ZFP8 | Not Available | | 50.45% |
| Matrix_231 | HDG2; HDG3; ATML1; HB-7 | Not Available | | 50.34% |
| Motif_125 | BOXIINTPATPB | Box II found in the tobacco plastid atpB gene promoter; Conserved in several NCII (nonconsensus type II) promoters of plastid genes; Important for the activity of this NCII promoter | | 50.22% |
| Matrix_206 | CUC1; ANAC100 | Not Available | | 50.18% |
| Motif_370 | TATABOX2 | TATA box; TATA box found in the 5'upstream region of pea legA gene; sporamin A of sweet potato; TATA box found in beta-phaseolin promoter; sequence and spacing of TATA box elements are critical for accurate initiation | | 50.14% |
| Matrix_109 | GBF3 | Not Available | | 50.09% |
| Matrix_394 | DREB_U | Not Available | | 50.08% |
| Motif_562 | -300CORE | TGTAAAG core motif in -300 elements of alpha-zein genes of maize; -300 element core; prolamin box; P-box; Binds with P-box binding factor (PBF); Binds with BPBF (Barley PBF); PBF is a DNA-binding protein of the DOF class of transcription factors | | 50.03% |
| Motif_598 | SORLIP3AT | one of Sequences Over-Represented in Light-Induced Promoters (SORLIPs) in Arabidopsis; Computationally identified phyA-induced motifs; See also all SORLIPs and also all SORLREPs; Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray data | | 50.00% |
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