| Matrix_135 | ABI3 | Not Available | | 84.64% |
| Matrix_509 | LEC2 | Not Available | | 75.36% |
| Motif_22 | RYREPEATLEGUMINBOX | RY repeat (CATGCAY) or legumin box found in seed-storage protein genes in legume such as soybean | | 66.05% |
| Motif_518 | SPHCOREZMC1 | Core of Sph element; Core motif of Sph element in maize C1 gene to which maize VP1 (viviparous 1) protein binds; VP1-responsive element; see RYREPEAT4; VP1 gene is specifically required for expression of the maturation program in seed development; VP1 is a novel transcription factor possibly involved in potentiation of a seed-specific hormone response | | 65.81% |
| Matrix_66 | AtLEC2 | Genes directly regulated by LEAFY COTYLEDON2 provide insight into the control of embryo maturation and somatic embryogenesis | | 64.49% |
| Matrix_352 | LEC2 | Not Available | | 62.46% |
| Matrix_360 | ORA59 | Not Available | | 62.27% |
| Motif_511 | RYREPEATGMGY2 | RY repeat motif (CATGCAT); Present in the 5' region of the soybean glycinin gene (Gy2) | | 61.80% |
| Matrix_218 | TIFY2B; TIFY1 | Not Available | | 61.76% |
| Matrix_155 | RAP2.6; ERF110; ABR1 | Not Available | | 60.42% |
| Matrix_295 | ERF1 | Not Available | | 60.36% |
| Matrix_45 | DRN | Not Available | | 59.97% |
| Matrix_505 | GATA8 | Not Available | | 59.84% |
| Matrix_296 | GBF2 | Not Available | | 59.83% |
| Matrix_300 | bZIP68; bZIP16 | Not Available | | 59.61% |
| Matrix_150 | UNE10; PIF7 | Not Available | | 59.44% |
| Matrix_476 | bHLH115; bHLH34 | Not Available | | 59.19% |
| Matrix_5 | AT5G51190; ERF104 | Not Available | | 59.00% |
| Matrix_365 | AT1G10120; AT1G25330; CIB5; AT1G68920; AT3G23690; CIB1 | Not Available | | 58.61% |
| Matrix_38 | SPL14 | Not Available | | 58.54% |
| Motif_640 | RYREPEATBNNAPA | RY repeat found in RY/G box (the complex containing the two RY repeats and the G-box) of napA gene in Brassica napus; Found between -78 and -50; Required for seed specific expression;dist B ABRE mediated transactivation by ABI3 adn ABI3-dependent response to ABA; a tetramer of the composite RY/G complex mediated only ABA-independent transactivation by ABI3; B2 domain of ABI3 is necessary for ABA-independent and ABA-dependent activation through the dist B ABRE | | 58.49% |
| Matrix_484 | ATERF13 | Not Available | | 58.31% |
| Matrix_147 | ERF3; AT1G80580 | Not Available | | 58.19% |
| Matrix_90 | BEE1; BEE3; AT3G07340; AT5G48560; AT5G50915 | Not Available | | 58.18% |
| Matrix_14 | ZCW32; AT5G62610 | Not Available | | 58.07% |
| 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 | | 58.04% |
| Matrix_230 | ARR11 | Not Available | | 57.91% |
| Matrix_344 | ATERF15; AT4G18450 | Not Available | | 57.73% |
| Motif_301 | SPHZMC1 | Sph element found in the maize C1 gene promoter; Located between -142 and -132; Essential for VP1 activation; VP1 gene is specifically required for expression of the maturation program in seed development; VP1 is a novel transcription factor possibly involved in potentiation of a seed-specific hormone response | | 57.58% |
| Matrix_80 | BIM1 | Not Available | | 57.50% |
| Matrix_448 | ATERF6 | Not Available | | 57.49% |
| Matrix_233 | MYC3 | Not Available | | 57.43% |
| Matrix_437 | MYC2 | Not Available | | 57.37% |
| Motif_310 | ANAERO3CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1); Arbitrary named ANAERO3CONSENSUS by the PLACEdb curator | | 57.16% |
| Matrix_60 | AT1G01260; AT5G57150 | Not Available | | 57.15% |
| Motif_437 | ANAERO2CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1) | | 56.68% |
| Motif_495 | TRANSINITMONOCOTS | Context sequence of translational initiation codon in monocots | | 56.20% |
| Matrix_350 | ARR14 | Not Available | | 56.16% |
| Matrix_188 | SPL4 | Not Available | | 56.03% |
| Matrix_37 | GATA27 | Not Available | | 56.01% |
| Matrix_137 | SPL1; SPL12 | Not Available | | 55.85% |
| Matrix_517 | ERF12 | Not Available | | 55.82% |
| Motif_244 | ABRE-like binding site motif | Not Available | | 55.71% |
| 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 | | 55.69% |
| Matrix_433 | ATERF1 | Not Available | | 55.65% |
| Matrix_255 | cdf3 | Not Available | | 55.55% |
| Matrix_320 | MYC4 | Not Available | | 55.47% |
| Motif_552 | MRE1 | MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1 | | 55.45% |
| Motif_638 | ABRE binding site motif | Not Available | | 55.40% |
| Matrix_420 | ANAC58 | Not Available | | 55.26% |
| Motif_584 | UPRE-III(bZIP60) | The plant-specific transcription factor NAC103 is induced by bZIP60 through a new cis-regulatory element to modulate the unfolded protein response in Arabidopsis | | 54.74% |
| Motif_653 | INTRONLOWER | 3' intron-exon splice junctions; Plant intron lower sequence; Consensus sequence for plant introns | | 54.52% |
| Matrix_307 | RGL2; RGL3 | Not Available | | 54.49% |
| Motif_383 | UPRE-III(bZIP60) | The plant-specific transcription factor NAC103 is induced by bZIP60 through a new cis-regulatory element to modulate the unfolded protein response in Arabidopsis | | 54.44% |
| Motif_183 | TRANSINITDICOTS | Context sequence of translational initiation codon in dicots | | 54.43% |
| Motif_456 | FUS3; ABI3 | Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | | 54.35% |
| Motif_238 | AtWER | Regulation of CAPRICE transcription by MYB proteins for root epidermis differentiation in Arabidopsis | | 54.26% |
| Matrix_502 | AT3G13040 | Not Available | | 53.97% |
| Matrix_283 | GATA15; GATA17; AT4G16141; GATA22; GATA23; GATA16; GNC | Not Available | | 53.85% |
| Matrix_395 | AT1G19210; ORA47; AT4G31060; AT5G21960 | Not Available | | 53.69% |
| Matrix_158 | AT1G03040; LRL1; UNE12; LRL2; LRL3 | Not Available | | 53.64% |
| Motif_291 | ABFs binding site motif | Binding site of trans-acting factor EMBP-1; wheat Em gene;Binding site of ABFs; ABFs (ABRE binding factors) were isolated from Arabidopsis by a yeast one-hybrid screening system; Expression ABFs is induced by ABA and various stress treatment; ABFs belongs to a distinct subfamily of bZIP proteins; Involved in ABA-mediated stress-signaling pathway;A plant leucine zipper protein that recognizes an abscisic acid response element | | 53.59% |
| Matrix_221 | SPL7 | Not Available | | 53.40% |
| Motif_418 | ABRE2HVA22 | ABRE2 of barley HVA22 gene; G-box; component of ABA response complex in HVA22 gene; see ABRE3 of HVA22 gene; see CE1 (coupling element 1 = TGCCACCGG) | | 53.36% |
| Matrix_76 | GATA10 | Not Available | | 53.29% |
| Matrix_323 | BIM3 | Not Available | | 53.28% |
| Matrix_139 | OBF5 | Not Available | | 53.16% |
| Matrix_339 | bHLH104 | Not Available | | 52.97% |
| Matrix_330 | MYC2; TT8 | Not Available | | 52.96% |
| Matrix_106 | AT5G47390 | Not Available | | 52.85% |
| Motif_48 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | | 52.84% |
| Motif_367 | FUS3 | Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | | 52.78% |
| Matrix_465 | MYC4 | Not Available | | 52.76% |
| Matrix_145 | GBF4; AT5G44080 | Not Available | | 52.72% |
| Motif_222 | AGMOTIFNTMYB2 | AG-motif found at -114 of the promoter of NtMyb2 gene; NtMyb2 is a regulator of the tobacco retrotransposon Tto1 and the defence-related gene phenylalanine ammonia lyase (PAL), which are induced by various stress such as wounding or elicitor treatment; AGP1 (GATA-type zinc finger protein) binding site | | 52.71% |
| Motif_412 | SORLREP5AT | one of Sequences Over-Represented in Light-Repressed Promoters (SORLREPs) in Arabidopsis; Computationally identified phyA-repressed motifs; See also all SORLREPs and all SORLIPs; Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray data | | 52.70% |
| Matrix_449 | BIM2 | Not Available | | 52.68% |
| Matrix_120 | BEE2 | Not Available | | 52.50% |
| Matrix_53 | MYC3 | Not Available | | 52.39% |
| Matrix_27 | ATAIB; ATNIG1 | Not Available | | 52.34% |
| Matrix_65 | POC1; PIL1 | Not Available | | 52.17% |
| Matrix_64 | PIF5 | Not Available | | 52.00% |
| Matrix_7 | PIF4 | Not Available | | 51.93% |
| Matrix_78 | AT3G45610 | Not Available | | 51.92% |
| Matrix_333 | GATA3 | Not Available | | 51.88% |
| Matrix_456 | bZIP60 | Not Available | | 51.86% |
| Motif_384 | SITEIOSPCNA | Site I of rice PCNA (proliferating cell nuclear antigen) gene; Found at -201 to -194; Resemble G-box; May contribute in part to transcriptional activation | | 51.85% |
| Matrix_493 | AT1G22985; AT1G71130 | Not Available | | 51.83% |
| Motif_473 | ABREOSRGA1 | ABRE (ABA responsive element) in rice RGA1 encoding a G protein alpha subunit;ABRE; ABA and water-stress responses; Found in maize rab28; maize rab28 is ABA-inducible in embryos and vegetative tissues; Found in the Arabidopsis (A.t.) alcohol dehydrogenase (Adh) gene promoter; ABRE2; Found in the maize (Z.m.) Cat1 gene promoter; Responsible for the induction by ABA; Binding site of CBF2; Arabidopsis CBF1 overexpression induces COR genes and enhances freezing tolerance; The CBF genes do not appear to be autoregulated through the CRT/DRE sequence;The cis-regulatory element CCACGTGG is involved in ABA and water-stress responses of the maize gene rab28. Characterization of a maize G-box binding factor that is induced by hypoxia | | 51.79% |
| 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 | | 51.78% |
| Matrix_200 | PIL5; AT4G28790; AT4G28800; AT4G28811; AT4G28815 | Not Available | | 51.73% |
| Motif_239 | MYB2 | Evidence for a role for AtMYB2 in the induction of the Arabidopsis alcohol dehydrogenase gene (ADH1) by low oxygen | | 51.72% |
| Matrix_6 | AT1G70000 | Not Available | | 51.70% |
| Matrix_336 | AT5G08520 | Not Available | | 51.67% |
| Motif_248 | L1-box | Arabidopsis DELLA and two HD-ZIP transcription factors regulate GA signaling in the epidermis through the L1 box cis-element | | 51.55% |
| Motif_447 | AtMYC2 BS in RD22; PIF4 | Binding site for MYC (rd22BP1) in Arabidopsis dehydration-resposive gene, rd22; MYC binding site in rd22 gene of Arabidopsis thaliana; ABA-induction; Located at ca. -200 of rd22 gene; Also MYB at ca. -141 of rd22 gene; See also MYBATRD22; Role of Arabidopsis MYC and MYB homologs in drought- and abscisic acid-regulated gene expression. Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | | 51.44% |
| Motif_263 | RYREPEATVFLEB4; ABI3 | RY repeat motif; quantitative seed expression; Gene: Vicia faba LeB4; Soybean glycinin (Gy2); other dicot and monocot seed protein genes; Sph box found in rice Osem gene promoter; Binding site of Arabidopsis B3-domain-containing transcription factor FUS3; TRAB1, bZIP transcription factor, interacts with VP1 and mediates abscisic acid-induced transcritption; FUS3 protein physically interact with two RY elements present in the AtGA3ox promoter;RY repeats are conserved in the 5 prime-flanking region of legume seed protein genes. Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | | 51.44% |
| Matrix_522 | GATA11; GATA13 | Not Available | | 51.40% |
| Matrix_389 | ILR3 | Not Available | | 51.38% |
| Matrix_331 | GBF1 | Not Available | | 51.35% |
| 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 | | 51.29% |
| Motif_145 | MYCATERD1 | MYC recognition sequence (from -466 to -461) necessary for expression of erd1 (early responsive to dehydration) in dehydrated Arabidopsis; NAC protein bound specifically to the CATGTG motif; NAC protein bound specifically to the CATGTG motif | | 51.29% |
| 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 | | 51.28% |
| Motif_139 | RHERPATEXPA7 | Right part of RHEs (Root Hair-specific cis-Elements) conserved among the Arabidopsis thaliana A7 (AtEXPA7) orthologous (and paralogous) genes from diverse angiosperm species with different hair distribution patterns | | 51.25% |
| Matrix_512 | HAT3 | Not Available | | 51.19% |
| Motif_131 | P1BS | PHR1-binding sequence found in the upstream regions of phosphate starvation responsive genes from several plant species; phr1 (phosphate starvation response 1) gene codes for PHR1 protein related to PSR1 gene in C. reinhardtii | | 51.06% |
| Matrix_271 | AT3G16350 | Not Available | | 51.04% |
| Matrix_50 | ATERF14; AT5G43410 | Not Available | | 51.04% |
| Matrix_156 | POC1 | Not Available | | 50.86% |
| Motif_414 | ABI3 | Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | | 50.69% |
| Motif_119 | ABI3 | Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | | 50.61% |
| Motif_191 | AtERF-4; AtERF-3 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression | | 50.60% |
| Matrix_369 | AT2G18300 | Not Available | | 50.47% |
| Matrix_109 | GBF3 | Not Available | | 50.34% |
| Motif_675 | FUS3; ABI3 | Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | | 50.33% |
| Matrix_518 | AT2G21230 | Not Available | | 50.22% |
| Matrix_177 | ADOF2 | Not Available | | 50.08% |
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