| Matrix_85 | SPL5 | Not Available | | 93.75% |
| Matrix_137 | SPL1; SPL12 | Not Available | | 84.45% |
| Matrix_180 | SPL1 | Not Available | | 74.42% |
| Matrix_450 | SPL7 | Not Available | | 72.71% |
| Matrix_31 | SPL1 | Not Available | | 71.39% |
| Matrix_165 | KNAT1 | Not Available | | 70.98% |
| Matrix_504 | WRKY40 | Not Available | | 69.17% |
| Matrix_221 | SPL7 | Not Available | | 68.70% |
| Matrix_328 | AT1G76580 | Not Available | | 68.29% |
| Matrix_152 | EIL1; AT5G65100 | Not Available | | 67.93% |
| Matrix_307 | RGL2; RGL3 | Not Available | | 67.20% |
| Matrix_254 | MYB52 | Not Available | | 66.47% |
| Matrix_188 | SPL4 | Not Available | | 66.16% |
| Matrix_415 | WRKY27 | Not Available | | 65.83% |
| Matrix_520 | ARR14 | Not Available | | 65.48% |
| Matrix_243 | RAP2.12; RAP2.2 | Not Available | | 65.43% |
| Matrix_99 | DOF4.7 | Not Available | | 65.06% |
| Matrix_494 | OBP4 | Not Available | | 64.89% |
| Matrix_38 | SPL14 | Not Available | | 64.83% |
| Matrix_197 | NAP | Not Available | | 63.62% |
| Matrix_80 | BIM1 | Not Available | | 63.23% |
| Matrix_325 | WRKY4; WRKY3; WRKY58; ATWRKY34; WRKY20; ATWRKY2 | Not Available | | 62.84% |
| Matrix_236 | CCA1 | Not Available | | 62.52% |
| Matrix_334 | AT3G23230 | Not Available | | 62.36% |
| Matrix_314 | WRKY65; WRKY14; WRKY35; WRKY69; WRKY16; ATWRKY52 | Not Available | | 62.36% |
| Matrix_316 | WRKY15; WRKY39; WRKY7; WRKY74 | Not Available | | 62.05% |
| Matrix_502 | AT3G13040 | Not Available | | 61.63% |
| Matrix_368 | ATWRKY56; WRKY45; WRKY75; WRKY24 | Not Available | | 61.30% |
| Matrix_78 | AT3G45610 | Not Available | | 61.25% |
| Matrix_37 | GATA27 | Not Available | | 61.17% |
| Matrix_249 | WRKY11 | Not Available | | 61.02% |
| Motif_674 | SPL4; SPL1; SPL5 | Molecular characterisation of the Arabidopsis SBP-box genes. Gene,A novel zinc-binding motif revealed by solution structures of DNA-binding domains of Arabidopsis SBP-family transcription factors | | 60.92% |
| Matrix_312 | ARF11; MP; ARF6; IAA21; ARF8; ARF4 | Not Available | | 60.61% |
| Matrix_271 | AT3G16350 | Not Available | | 60.61% |
| Matrix_256 | IXR11; KNAT5; KNAT4; KNAT3 | Not Available | | 60.57% |
| Matrix_202 | WRKY71; WRKY28; WRKY8 | Not Available | | 60.52% |
| Motif_161 | SPL7; SPL4 | A novel zinc-binding motif revealed by solution structures of DNA-binding domains of Arabidopsis SBP-family transcription factors | | 60.48% |
| Matrix_500 | WRKY43 | Not Available | | 60.30% |
| Matrix_336 | AT5G08520 | Not Available | | 60.11% |
| Matrix_33 | SPL11; SPL10; SPL2 | Not Available | | 60.08% |
| Matrix_230 | ARR11 | Not Available | | 60.03% |
| Matrix_6 | AT1G70000 | Not Available | | 59.97% |
| Matrix_460 | NAM; anac025; ATNAC2 | Not Available | | 59.82% |
| Matrix_177 | ADOF2 | Not Available | | 59.80% |
| Matrix_235 | WRKY67; WRKY64; WRKY63; WRKY66 | Not Available | | 59.77% |
| Matrix_425 | TIFY2A | Not Available | | 59.72% |
| Matrix_289 | WRKY25 | Not Available | | 59.46% |
| Matrix_106 | AT5G47390 | Not Available | | 59.33% |
| Matrix_505 | GATA8 | Not Available | | 59.18% |
| Matrix_418 | KNAT6; KNAT2 | Not Available | | 58.85% |
| Matrix_469 | NAC041; NAC083 | Not Available | | 58.48% |
| Matrix_195 | GATA2; GATA4 | Not Available | | 58.47% |
| Motif_250 | ACGTOSGLUB1 | ACGT motif found in GluB-1 gene in rice; Required for endosperm-specific expression; Conserved in the 5'-flanking region of glutelin genes; Combination of GCN4, AACA and ACGT motifs was found sufficient to confer a detectable level of endosperm expression | | 58.44% |
| Matrix_512 | HAT3 | Not Available | | 58.32% |
| Matrix_315 | MYB111 | Not Available | | 58.23% |
| Matrix_226 | GATA1 | Not Available | | 58.09% |
| Matrix_248 | ZFP5 | Not Available | | 58.06% |
| Matrix_411 | DOF5.6 | Not Available | | 57.99% |
| Matrix_157 | LHY; RVE2 | Not Available | | 57.84% |
| Matrix_392 | ARR2 | Not Available | | 57.81% |
| Matrix_463 | HAT3.1 | Not Available | | 57.70% |
| Motif_429 | MYB98 | MYB98 positively regulates a battery of synergid-expressed genes encoding filiform apparatus localized proteins | | 57.65% |
| Matrix_41 | anac058 | Not Available | | 57.58% |
| Motif_189 | CMSRE1IBSPOA | CMSRE-1 (Carbohydrate Metabolite Signal Responsive Element 1) found in the promoter of sweet potato sporamin A gene | | 57.53% |
| Matrix_416 | ASL5 | Not Available | | 57.42% |
| Matrix_408 | GATA12 | Not Available | | 57.41% |
| Matrix_350 | ARR14 | Not Available | | 57.30% |
| Matrix_182 | ATHB6 | Not Available | | 57.26% |
| Matrix_206 | CUC1; ANAC100 | Not Available | | 57.13% |
| Matrix_299 | PFG3 | Not Available | | 57.05% |
| Matrix_245 | WRKY62; WRKY38 | Not Available | | 56.97% |
| Matrix_506 | DRNL; ATERF-4 | Not Available | | 56.96% |
| Matrix_447 | RVE1 | Not Available | | 56.84% |
| Matrix_286 | GATA7 | Not Available | | 56.70% |
| Matrix_40 | TCP2 | Not Available | | 56.69% |
| Matrix_274 | EDF3 | Not Available | | 56.62% |
| Matrix_508 | APL; AT3G12730; AT3G24120; UNE16 | Not Available | | 56.51% |
| Motif_322 | GATA-1 | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | | 56.47% |
| Motif_282 | D4GMAUX28 | D4; DNase I protected sequence found in the soybean auxin responsive gene, Aux28, promoter; D1 and D4 share a very similar core sequence TAGTXXCTGT and TAGTXCTGT, respectively; D1/D4-like sequence were identified in several other auxin-responsive genes | | 56.43% |
| Matrix_162 | AtPHR1 | Not Available | | 56.05% |
| Matrix_109 | GBF3 | Not Available | | 56.04% |
| Matrix_283 | GATA15; GATA17; AT4G16141; GATA22; GATA23; GATA16; GNC | Not Available | | 56.00% |
| Matrix_142 | ZFP8 | Not Available | | 55.97% |
| Matrix_84 | AtGRF6 | Not Available | | 55.96% |
| Matrix_46 | AT4G21895 | Not Available | | 55.87% |
| Matrix_70 | GATA26 | Not Available | | 55.83% |
| Matrix_281 | TCP13 | Not Available | | 55.79% |
| Matrix_379 | RHL41 | Not Available | | 55.72% |
| Matrix_493 | AT1G22985; AT1G71130 | Not Available | | 55.72% |
| Matrix_14 | ZCW32; AT5G62610 | Not Available | | 55.59% |
| Matrix_503 | AT2G37430; AT3G53600 | Not Available | | 55.46% |
| Matrix_331 | GBF1 | Not Available | | 55.44% |
| Matrix_44 | CUC3; anac046; NAC3; ANAC087; ATNAC6; CUC2 | Not Available | | 55.40% |
| Matrix_263 | WRKY33; WRKY19; WRKY32 | Not Available | | 55.35% |
| Matrix_91 | CRF3 | Not Available | | 55.31% |
| Matrix_126 | RBE | Not Available | | 55.30% |
| Matrix_333 | GATA3 | Not Available | | 55.25% |
| Matrix_507 | TCP3 | Not Available | | 55.24% |
| Motif_167 | SBP-box promoter motif | Molecular characterisation of the Arabidopsis SBP-box genes | | 55.14% |
| Motif_286 | SEBFCONSSTPR10A | Binding site of the potato silencing element binding factor (SEBF) gene found in promoter of pathogenesis-related gene (PR-10a); Located between -45 and -39; Similar to the auxin response element | | 55.10% |
| Matrix_482 | AT2G25650; AT4G00270 | Not Available | | 55.09% |
| Matrix_239 | AT5G04390 | Not Available | | 55.09% |
| Matrix_198 | STZ; C2H2; AZF3 | Not Available | | 54.98% |
| Matrix_86 | CRF5; CRF6; CRF4 | Not Available | | 54.95% |
| Matrix_455 | MYB111 | Not Available | | 54.88% |
| Matrix_161 | MYBC1; AT3G10760; LUX; AT5G05090; AT5G59570 | Not Available | | 54.85% |
| Matrix_67 | GLK1 | Not Available | | 54.80% |
| Matrix_143 | GATA14; GATA6; GATA5 | Not Available | | 54.75% |
| Matrix_489 | RAV1 | Not Available | | 54.72% |
| Matrix_261 | ATERF-1 | Not Available | | 54.69% |
| Matrix_3 | WRKY48 | Not Available | | 54.68% |
| Matrix_75 | WRKY29 | Not Available | | 54.66% |
| Matrix_491 | AT1G68670; AT3G25790 | Not Available | | 54.64% |
| Matrix_347 | WOX14; WOX10 | Not Available | | 54.63% |
| Matrix_26 | ATMYB3; MYB24 | Not Available | | 54.54% |
| Matrix_53 | MYC3 | Not Available | | 54.47% |
| Matrix_218 | TIFY2B; TIFY1 | Not Available | | 54.46% |
| Matrix_12 | EIN3; EIL2 | Not Available | | 54.22% |
| Matrix_69 | AT2G03500 | Not Available | | 54.21% |
| Matrix_209 | RAP2.6 | Not Available | | 54.00% |
| Matrix_227 | AT1G64620 | Not Available | | 53.98% |
| Matrix_426 | CRF1; CRF2 | Not Available | | 53.97% |
| Motif_57 | ABREOSRAB21 | ABA responsive element (ABRE) of wheat Em and rice rab21 genes; Proposed consensus sequence for the repeated motif (Em1a and Em1b) of wheat Em gene | | 53.87% |
| Matrix_16 | AT3G04450; PHL1 | Not Available | | 53.79% |
| Matrix_164 | AT1G02030; AT2G45120; AZF2; AT3G60580 | Not Available | | 53.78% |
| Matrix_35 | YAB5; YAB3 | Not Available | | 53.77% |
| Matrix_519 | ATDOF2.4 | Not Available | | 53.72% |
| Matrix_371 | MYB7; AtMYB6; AtMYB32; ATMYB4 | Not Available | | 53.61% |
| Matrix_156 | POC1 | Not Available | | 53.57% |
| Matrix_451 | STY1 | Not Available | | 53.47% |
| Matrix_341 | HMGA | Not Available | | 53.35% |
| Matrix_308 | INO | Not Available | | 53.33% |
| Matrix_17 | WRKY22 | Not Available | | 53.23% |
| Matrix_337 | MYB46 | Not Available | | 53.23% |
| Matrix_374 | AT5G07580; AT5G61590 | Not Available | | 53.16% |
| Matrix_58 | WRKY55; ATWRKY54; WRKY46; WRKY70; AtWRKY41; WRKY53; WRKY30 | Not Available | | 53.07% |
| Matrix_321 | HRD | Not Available | | 52.98% |
| Matrix_492 | ETT | Not Available | | 52.97% |
| Matrix_155 | RAP2.6; ERF110; ABR1 | Not Available | | 52.91% |
| Matrix_370 | WRKY50; WRKY51 | Not Available | | 52.91% |
| Matrix_285 | DDF1 | Not Available | | 52.90% |
| Matrix_255 | cdf3 | Not Available | | 52.90% |
| Matrix_351 | HAT9; ATHB-4; ATHB2; HAT22; HAT14 | Not Available | | 52.85% |
| Matrix_436 | AT3G49930; AZF1 | Not Available | | 52.84% |
| Matrix_148 | WRKY60 | Not Available | | 52.81% |
| Matrix_487 | AT1G29160 | Not Available | | 52.72% |
| Matrix_275 | ZAP1 | Characterization of a zinc-dependent transcriptional activator from Arabidopsis | | 52.58% |
| Motif_329 | AMMORESIIUDCRNIA1 | Motifs (IIU and IID) found in the Chlamydomonas Nia1 gene promoter; Involved in ammonium-response; Located between -231 and -219 and also between -76 and -65; Involved in Nia1 transcription activation | | 52.55% |
| Matrix_404 | OBP4 | Not Available | | 52.41% |
| Matrix_52 | ZAT18 | Not Available | | 52.37% |
| Matrix_303 | ATWOX13 | Not Available | | 52.37% |
| Matrix_357 | WRKY61; WRKY6; WRKY9; WRKY36; WRKY47; WRKY42; WRKY31; WRKY72 | Not Available | | 52.36% |
| Matrix_361 | AT1G25550 | Not Available | | 52.36% |
| Matrix_231 | HDG2; HDG3; ATML1; HB-7 | Not Available | | 52.34% |
| Matrix_327 | ARR11 | Not Available | | 52.21% |
| Motif_604 | EMHVCHORD | Endosperm motif (EM) found in the promoter of barley c-hordein gene; Involved in the nitrogen response of c-hordein promoter | | 52.14% |
| Matrix_144 | AT5G08330; AT5G23280 | Not Available | | 52.03% |
| Matrix_284 | KAN2; KAN3; KAN; KAN4 | Not Available | | 51.94% |
| Motif_576 | TGACGTVMAMY | TGACGT motif found in the Vigna mungo alpha-Amylase (Amy) gene promoter; Located between -128 and -123; Required for high level expression of alpha-Amylase in the cotyledons of the germinated seeds | | 51.91% |
| Motif_64 | ABAREG2 | Motif related to ABA regulation; Gene: sunflower helianthinin; transacting factor: bZIP | | 51.84% |
| Matrix_131 | HDG12; EDT1; GL2; HDG8 | Not Available | | 51.82% |
| Matrix_324 | AT2G01060 | Not Available | | 51.78% |
| Matrix_287 | ERF2 | Not Available | | 51.74% |
| Matrix_253 | ETT | Not Available | | 51.71% |
| Matrix_100 | AT1G48610 | Not Available | | 51.67% |
| Matrix_94 | TCP5 | Not Available | | 51.65% |
| Matrix_423 | AT3G04030 | Not Available | | 51.59% |
| Matrix_241 | HB-1; AT5G44180 | Not Available | | 51.57% |
| Matrix_453 | EIL3 | Not Available | | 51.46% |
| Matrix_101 | ERF5 | Not Available | | 51.38% |
| Matrix_317 | AT1G06070; AT2G31370; AT2G40620 | Not Available | | 51.31% |
| Matrix_424 | MYB59 | Not Available | | 51.14% |
| Matrix_279 | HRS1 | Not Available | | 51.13% |
| Motif_568 | MYB98 | MYB98 positively regulates a battery of synergid-expressed genes encoding filiform apparatus localized proteins | | 51.06% |
| Motif_627 | ACGTABREMOTIFA2OSEM | Experimentally determined sequence requirement of ACGT-core of motif A in ABRE of the rice gene, OSEM; DRE and ABRE are interdependent in the ABA-responsive expression of the rd29A in Arabidopsis | | 50.90% |
| 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 | | 50.89% |
| Matrix_211 | MYB3 | Not Available | | 50.82% |
| Matrix_296 | GBF2 | Not Available | | 50.79% |
| Matrix_300 | bZIP68; bZIP16 | Not Available | | 50.68% |
| Matrix_515 | ddf2; ATCBF3; CBF1; CBF4 | Not Available | | 50.67% |
| Matrix_237 | MYB55 | Not Available | | 50.64% |
| Matrix_259 | AT1G50680; AT1G51120 | Not Available | | 50.59% |
| Matrix_112 | TBP2; TFIID-1 | Not Available | | 50.59% |
| Motif_26 | GRF7 | Arabidopsis GROWTH-REGULATING FACTOR7 Functions as a Transcriptional Repressor of Abscisic Acid- and Osmotic Stress-Responsive Genes, Including DREB2A | | 50.58% |
| Matrix_377 | AT1G75490; DREB2C; AT2G40350; AT5G18450 | Not Available | | 50.57% |
| 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 | | 50.57% |
| Matrix_260 | CAMTA3 | Not Available | | 50.55% |
| Matrix_461 | ATHB12 | Not Available | | 50.54% |
| Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | | 50.54% |
| Matrix_427 | ZAT14 | Not Available | | 50.53% |
| Motif_619 | SITEIIBOSPCNA | Site IIb of rice PCNA (proliferating cell nuclear antigen) gene; Found at -178 to -169; Binding site for two nuclear proteins, PCF1 and PCF2; Suggested to be involved in meristematic tissue-specific expression; Resemble the conserved motif (T/GGTCCCAT) found in promoter regions of auxin-regulated genes | | 50.44% |
| Matrix_97 | APRR2 | Not Available | | 50.37% |
| Motif_356 | S2FSORPL21 | S2F binding site (S2 site) in spinach RPL21 gene encoding the plastid ribosomal protein L21; S2 site (CATACAWW) is conserved in promoter region of many nuclear genes encoding plastid proteins; Leaf-specific, light-independent regulatory element; S2 site is related to but different from the light-responsive GT-1 binding site | | 50.33% |
| 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 | | 50.32% |
| Matrix_319 | TEM1 | Not Available | | 50.31% |
| Matrix_229 | CDC5 | A cdc5+ homolog of a higher plant, Arabidopsis thaliana | | 50.27% |
| Motif_393 | AUXREPSIAA4 | AuxRE (Auxine responsive element ) of pea PS-IAA4/5 gene; Indoleacetic acid-inducible genes; domain A; TGA1a is preferentially expressed in root tip meristems; TGA1a may contribute to the expression of GST isoenzymes, especially in root tip meristems | | 50.18% |
| Matrix_475 | AT5G64220 | Not Available | | 50.15% |
| Matrix_71 | ATHB7 | Not Available | | 50.14% |
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