| Matrix_360 | ORA59 | Not Available | | 92.03% |
| Matrix_484 | ATERF13 | Not Available | | 91.21% |
| Matrix_147 | ERF3; AT1G80580 | Not Available | | 90.10% |
| Matrix_45 | DRN | Not Available | | 88.74% |
| Matrix_517 | ERF12 | Not Available | | 86.15% |
| Matrix_5 | AT5G51190; ERF104 | Not Available | | 79.07% |
| Motif_320 | AGCBOXNPGLB | AGC box repeated twice in a 61 bp enhancer element in tobacco class I beta-1,3-glucanase (GLB) gene;GCC-box; Binding sequence of Arabidopsis AtERFs; AtERF1,2 and 5 functioned as activators of GCC box-dependent transcription; AtERF3 and 4 acted as repressors; AtERF proteins are stress signal-response factors; EREBP2 binding site; Conserved in most PR-protein genes; Rice MAPK (BWMK1) phosphorylates OS EREBP1, which enhance DNA-binding activity of the factor to the GCC box | | 78.01% |
| Matrix_344 | ATERF15; AT4G18450 | Not Available | | 74.54% |
| Motif_50 | AtERF-7; AtERF-4; AtERF-3; AtERF-1; AtERF-2; AtERF-5 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression. Role of an Arabidopsis AP2/EREBP-type transcriptional repressor in abscisic acid and drought stress responses | | 73.61% |
| Motif_457 | AtERF-4; AtERF-3; AtERF-1; AtERF-2; AtERF-5 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression | | 73.61% |
| Motif_313 | ERF1 BS in AtCHI-B | Core of GCC-box found in many pathogen-responsive genes such as PDF1.2, Thi2.1, and PR4; Has been shown to function as ethylene-responsive element; Appears to play important roles in regulating jasmonate-responsive gene expression; Tomato Pti4 (ERF) regulates defence-related gene expression via GCC box and non-GCC box cis elements (Myb1 (GTTAGTT) and G-box(CACGTG)); Nuclear events in ethylene signaling: a transcriptional cascade mediated by ETHYLENE-INSENSITIVE3 and ETHYLENE-RESPONSE-FACTOR1;Molecular responses to dehydration and low temperature | | 72.52% |
| Matrix_73 | DEAR3; RAP2.9; RAP2.10 | Not Available | | 71.90% |
| Matrix_478 | AT1G01250 | Not Available | | 71.74% |
| Matrix_242 | AT2G25820; AT3G16280; AT4G32800; TINY2; tny | Not Available | | 70.85% |
| Matrix_378 | ATERF1 | Not Available | | 70.67% |
| Motif_60 | AtERF-4; AtERF-3 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression | | 70.13% |
| Matrix_224 | ERF1 | Not Available | | 68.07% |
| Matrix_363 | RAP2.3 | Not Available | | 67.62% |
| Matrix_426 | CRF1; CRF2 | Not Available | | 67.57% |
| Matrix_86 | CRF5; CRF6; CRF4 | Not Available | | 66.76% |
| Matrix_395 | AT1G19210; ORA47; AT4G31060; AT5G21960 | Not Available | | 66.72% |
| Matrix_506 | DRNL; ATERF-4 | Not Available | | 65.85% |
| Matrix_261 | ATERF-1 | Not Available | | 65.73% |
| Matrix_91 | CRF3 | Not Available | | 64.97% |
| Matrix_493 | AT1G22985; AT1G71130 | Not Available | | 64.58% |
| Motif_371 | DRE-like promoter motif | The Expression Profile Matrix of Arabidopsis Transcription Factor Genes Suggests Their Putative Functions in Response to Environmental Stresses | | 64.43% |
| Matrix_50 | ATERF14; AT5G43410 | Not Available | | 64.15% |
| Matrix_321 | HRD | Not Available | | 63.92% |
| Motif_127 | SBOXATRBCS | S-box conserved in several rbcS promoters in Arabidopsis; ABI4 binding site; Important for the sugar and ABA responsiveness of CMA5 | | 63.74% |
| Matrix_288 | RAP2.3 | Not Available | | 63.71% |
| Matrix_138 | RRTF1 | Not Available | | 63.51% |
| Matrix_473 | RRTF1 | Not Available | | 63.34% |
| Matrix_252 | RAP2.6 | Not Available | | 62.92% |
| Motif_54 | LTREATLTI78 | Putative low temperature responsive element (LTRE); Found in Arabidopsis thaliana low-temperature-induced (lti) genes, lti78 and lti65; Repeated four times in lti78 which is also known as cor78 and rd29A; Found also in barley low temperature responsive genes, blt4.2, blt4.6, blt4.9 (lipid transfer genes); cold inducible; See LTRECORE; Also present in rab18, kin1, and kin2; Differential expression of two related, low-temperature-induced genes in Arabidopsis thaliana | | 62.85% |
| Motif_625 | AtERF-4; AtERF-3 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression | | 62.68% |
| Matrix_343 | AT2G33710 | Not Available | | 62.44% |
| Motif_191 | AtERF-4; AtERF-3 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression | | 61.85% |
| Matrix_234 | RAP2.3 | Not Available | | 61.75% |
| Motif_37 | AtERF-4 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression | | 61.66% |
| Matrix_119 | RRTF1 | Not Available | | 61.19% |
| Motif_402 | AtTINY2 | Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana | | 61.11% |
| Matrix_277 | RAP2.6 | Not Available | | 61.06% |
| Matrix_387 | ORA47 | Not Available | | 60.90% |
| Matrix_146 | ORA47 | Not Available | | 60.35% |
| Matrix_377 | AT1G75490; DREB2C; AT2G40350; AT5G18450 | Not Available | | 59.39% |
| Motif_685 | PALINDROMICCBOXGM | Palindromic C-box in soybean;bZIP factors, STGA1 and STFs (STF1 and STF2) found in soybean apical hypocotyl, bind to this sequence | | 59.39% |
| Matrix_155 | RAP2.6; ERF110; ABR1 | Not Available | | 59.00% |
| Matrix_272 | DEAR4 | Not Available | | 58.94% |
| Motif_444 | OCTAMOTIF2 | Octamer motif found in histone-gene-specific consensus sequences; 200 base upstream from the initiation codon ATG; Exist in all of seven plant histone genes | | 58.71% |
| Matrix_462 | ATERF-8 | Not Available | | 58.24% |
| Matrix_448 | ATERF6 | Not Available | | 56.66% |
| Matrix_406 | ATERF-7 | Not Available | | 56.61% |
| Matrix_433 | ATERF1 | Not Available | | 56.52% |
| Matrix_409 | DEAR3 | Not Available | | 55.98% |
| Motif_454 | DRECRTCOREAT | Core motif of DRE/CRT (dehydration-responsive element/C-repeat) cis-acting element found in many genes in Arabidopsis and in rice; Os DREB1A bound to GCCGAC more preferentially than to ACCGAC whereas At DREB1A bound to both GCCGAC and ACCGAC efficiently; Maize ZmDREB1A bound to DRE; HaDREB2 in Helianthus annuus (sunflower) | | 55.76% |
| Matrix_374 | AT5G07580; AT5G61590 | Not Available | | 55.65% |
| Matrix_79 | FUS3 | Not Available | | 55.41% |
| Matrix_334 | AT3G23230 | Not Available | | 55.27% |
| Matrix_154 | AT1G22190; AT1G36060; AT1G64380; RAP2.4; AT2G20880; AT2G22200; AT4G13620; AT4G28140; AT4G39780; AT5G65130 | Not Available | | 54.88% |
| Motif_437 | ANAERO2CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1) | | 54.84% |
| Motif_459 | SORLIP1 | Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray data | | 54.78% |
| Motif_643 | DRE2COREZMRAB17 | DRE2 core found in maize rab17 gene promoter; DBF1 and DBF2 bound to DRE2; rab17 is expressed during late embryogenesis, and is induced by ABA | | 54.75% |
| Motif_577 | GRAZMRAB28 | GRA; GC-rich rab activator; Found in the promoter of ABA responsive rab28 gene from maize; Similar (seven of 12 bases) to the GRA element from the maize rab17 promoter (GRAZMRAB17); Found at -138 to -130 | | 54.50% |
| Matrix_135 | ABI3 | Not Available | | 54.02% |
| Motif_379 | ABRECE1HVA22 | CE1(coupling element 1) of barley HVA22 gene; possible binding site for nuclear bZIP protein; ABA responsive complex consists of a G-box, namely ABRE3 (GCCACGTACA), and CE1 | | 53.98% |
| Matrix_454 | AT1G77200; ATERF38; AT4G16750; AT5G52020 | Not Available | | 53.38% |
| Motif_274 | MYB1 binding site motif | Isolation and characterization of a fourth Arabidopsis thaliana G-box-binding factor, which has similarities to Fos oncoprotein | | 53.35% |
| Motif_353 | HEXAMERATH4 | hexamer motif of Arabidopsis thaliana histone H4 promoter;Identification of cis-elements regulating the expression of an Arabidopsis histone H4 gene | | 53.35% |
| Motif_239 | MYB2 | Evidence for a role for AtMYB2 in the induction of the Arabidopsis alcohol dehydrogenase gene (ADH1) by low oxygen | | 53.01% |
| Matrix_355 | ERF10; ERF11 | Not Available | | 52.99% |
| Motif_399 | UPRMOTIFIAT | Motif I in the conserved UPR (unfolded protein response) cis-acting element in Arabidopsis genes coding for SAR1B, HSP-90, SBR-like, Ca-ATPase 4, CNX1, PDI, etc. | | 52.57% |
| Motif_99 | DREB1A; DREB1C; DREB1B | Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems;Low temperature regulation of the Arabidopsis CBF family of AP2 transcriptional activators as an early step in cold-induced COR gene expression;Arabidopsis thaliana CBF1 encodes an AP2 domain-containing transcriptional activator that binds to the C-repeat/DRE, a cis-acting DNA regulatory element that stimulates transcription in response to low temperature and water deficit | | 52.44% |
| Matrix_326 | AT5G07310; Rap2.6L; AT5G61890 | Not Available | | 52.43% |
| Matrix_223 | MYB60; ATMYB31; ATMYB30; MYB94; MYBCOV1 | Not Available | | 52.43% |
| Matrix_482 | AT2G25650; AT4G00270 | Not Available | | 52.34% |
| Motif_552 | MRE1 | MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1 | | 52.07% |
| Motif_318 | CGCGBOXAT | CGCG box recognized by AtSR1-6 (Arabidopsis thaliana signal-responsive genes); Multiple CGCG elements are found in promoters of many genes; Ca2+/calmodulin binds to all AtSRs | | 51.96% |
| Matrix_292 | FTQ4 | Not Available | | 51.90% |
| Motif_392 | PALBOXAPC | Box A; Consensus; One of three putative cis-acting elements (boxes P, A, and L) of phenylalanine ammonia-lyase (PAL; EC 4.3.1.5) genes in parsley (P.c.); None of these elements (boxes P, A, and L) alone, or the promoter region containing all of them together, conferred elicitor or light responsiveness. These elements appear to be necessary but not sufficient for elicitor- or light-mediated PAL gene activation; See also Box P, Box L | | 51.75% |
| Motif_509 | AtTINY2 | Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana | | 51.55% |
| Matrix_190 | ATERF1 | Not Available | | 51.32% |
| Matrix_287 | ERF2 | Not Available | | 51.06% |
| Motif_453 | HEXMOTIFTAH3H4 | hexamer motif found in promoter of wheat histone genes H3 and H4; CaMV35S; NOS; Binding with HBP-1A and HBP-1B; Binding site of wheat nuclear protein HBP-1 (histone DNA binding protein-1); HBP-1 has a leucine zipper motif; hexamer motif in type 1 element may play important roles in regulation of replication- dependent but not of replication-independent expression of the wheat histone H3 gene;Rice OBF1-homodimer-binding site | | 50.99% |
| Motif_368 | CBF1 BS in cor15a | Determinants in the sequence specific binding of two plant transcription factors, CBF1 and NtERF2, to the DRE and GCC motifs | | 50.97% |
| Motif_233 | DRE1COREZMRAB17 | DRE1 core found in maize rab17 gene promoter; DRE1 was protected, in in vivo footprinting, by a protein in embryos specifically, but in leaves, was protected when was treated with ABA and drought; rab17 is expressed during late embryogenesis, and is induced by ABA | | 50.90% |
| Motif_469 | QELEMENTZMZM13 | Q(quantitative)-element in maize ZM13 gene promoter; Found at -107 to -102; Involved in expression enhancing activity; ZM13 is a maize homolog of tomato LAT52 gene; ZM13 is a pollen-specific maize gene | | 50.90% |
| Matrix_490 | AtMYB77; ATMYB44 | Not Available | | 50.84% |
| Matrix_362 | DEAR3 | Not Available | | 50.75% |
| Matrix_61 | ATCBF3 | Not Available | | 50.69% |
| Motif_602 | E2Fc; E2Fd | The E2F family of transcription factors from Arabidopsis thaliana. Novel and conserved components of the retinoblastoma/E2F pathway in plants | | 50.61% |
| Matrix_515 | ddf2; ATCBF3; CBF1; CBF4 | Not Available | | 50.53% |
| Motif_97 | E2Fc; E2Fd | The E2F family of transcription factors from Arabidopsis thaliana. Novel and conserved components of the retinoblastoma/E2F pathway in plants | | 50.41% |
| Motif_98 | SEF3MOTIFGM | SEF3 binding site; Soybean consensus sequence found in the 5' upstream region of beta-conglycinin (7S globulin) gene; AACCCA(-27bp-)AACCCA; SEF=soybean embryo factor; SEF2; SEF3; SEF4 | | 50.32% |
| Motif_622 | SORLIP2AT | 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 | | 50.24% |
| Motif_144 | DREB2A; DREB1A | Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems;Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses | | 50.05% |
| Motif_218 | ABRERATCAL | ABRE-related sequence or Repeated sequence motifs identified in the upstream regions of 162 Ca(2+)-responsive upregulated genes; see also ABRE | | 50.02% |
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