| Matrix_104 | PI | Not available | Upstream | -1122 |
| | | Upstream | -1273 |
| Matrix_109 | GBF3 | Not available | Upstream | -1273 |
| Matrix_113 | ABI5 | Not available | Upstream | -1273 |
| Matrix_122 | ABF1;AREB2 | Not available | Upstream | -463 |
| | | Upstream | -597 |
| | | Upstream | -1123 |
| | | Upstream | -1274 |
| Matrix_129 | ABF1 | Not available | Upstream | -1274 |
| Matrix_134 | ABF1 | Not available | Upstream | -599 |
| | | Upstream | -1123 |
| | | Upstream | -1274 |
| Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -1275 |
| Matrix_156 | POC1 | Not available | Upstream | -1273 |
| Matrix_188 | SPL4 | Not available | Upstream | -593 |
| Matrix_192 | FHY3/FAR1 | Not available | Upstream | -1271 |
| Matrix_194 | HYH;HY5 | Not available | Upstream | -1120 |
| | | Upstream | -1271 |
| Matrix_214 | AP1 | Not available | Upstream | -1272 |
| Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -599 |
| | | Upstream | -1271 |
| Matrix_231 | HDG2;HDG3;ATML1;HB-7 | Not available | Upstream | -387 |
| Matrix_264 | ATAREB1 | Not available | Upstream | -1274 |
| Matrix_297 | TCP15 | Not available | Upstream | -1184 |
| Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -1274 |
| Matrix_33 | SPL11;SPL10;SPL2 | Not available | Upstream | -593 |
| Matrix_331 | GBF1 | Not available | Upstream | -1273 |
| Matrix_338 | AP2 | Not available | Upstream | -1120 |
| | | Upstream | -1271 |
| Matrix_348 | AT5G51910 | Not available | Upstream | -1185 |
| Matrix_356 | PRR5 | Not available | Upstream | -1116 |
| | | Upstream | -1271 |
| Matrix_377 | AT1G75490;DREB2C;AT2G40350;AT5G18450 | Not available | Upstream | -78 |
| Matrix_395 | AT1G19210;ORA47;AT4G31060;AT5G21960 | Not available | Upstream | -1056 |
| Matrix_443 | AGL15 | Not available | Upstream | -1121 |
| | | Upstream | -1272 |
| Matrix_480 | BES1 | Not available | Upstream | -1273 |
| Matrix_488 | ABF1 | Not available | Upstream | -590 |
| | | Upstream | -1096 |
| Matrix_55 | PIF3 | Not available | Upstream | -1273 |
| Matrix_7 | PIF4 | Not available | Upstream | -1273 |
| | | Upstream | -1274 |
| Matrix_77 | PRR5 | Not available | Upstream | -462 |
| | | Upstream | -1122 |
| | | Upstream | -1288 |
| Motif_179 | CACGTGMOTIF;BES1;PIF4;PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling;A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana; CACGTG motif; G-box; Binding site of Arabidopsis GBF4; C. roseus G-box binding factor 1 (CrGBF1) and 1 (CrGBF2) can act as transcriptional repressors of the Str promoter via direct interaction with the G-box; Essential for expression of beta-phaseolin gene during embryogenesis in bean, tobacco, Arabidopsis; Tomato Pti4 (ERF) regulates defense-related gene expression via GCC box and non-GCC box cis-element (Myb1 (GTTAGTT) and G-box (CACGTG)); Isolation and characterization of a fourth Arabidopsis thaliana G-box-binding factor, which has similarities to Fos oncoprotein; Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -784 |
| | | Upstream | -1275 |
| Motif_194 | EBOXBNNAPA | E-box of napA storage-protein gene of Brassica napus;This sequence is also known as RRE (R response element); MYC recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis; Binding site of ATMYC2 (previously known as rd22BP1); see E-box and MYCATRD22; MYC recognition sequence in CBF3 promoter; Binding site of ICE1 (inducer of CBF expression 1) that regulates the transcription of CBF/DREB1 genes in the cold in Arabidopsis; ICE1 | Upstream | -1275 |
| Motif_195 | TATABOX4 | TATA box; TATA box found in the 5'upstream region of sweet potato sporamin A gene; TATA box found in beta-phaseolin promoter; sequence and spacing of TATA box elements are critical for accurate initiation | Upstream | -380 |
| Motif_200 | GBOXLERBCS | G box; Conserved sequence upstream of light-regulated genes; Sequence found in the promoter region of rbcS of tomato and Arabidopsis; Binding with GBF | Upstream | -1273 |
| 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 | Upstream | -464 |
| | | Upstream | -598 |
| | | Upstream | -784 |
| | | Upstream | -1124 |
| | | Upstream | -1274 |
| | | Upstream | -1275 |
| Motif_244 | ABRE-like binding site motif | Not available | Upstream | -1273 |
| | | Upstream | -1275 |
| 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 | Upstream | -1273 |
| Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -175 |
| | | Upstream | -784 |
| | | Upstream | -1275 |
| 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 | Upstream | -1261 |
| Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -1274 |
| 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) | Upstream | -379 |
| Motif_503 | EECCRCAH1 | EEC; Consensus motif of the two enhancer elements, EE-1 and EE-2, both found in the promoter region of the Chlamydomonas Cah1 (encoding a periplasmic carbonic anhydrase); Binding site of Myb transcription factor LCR1 | Upstream | -1268 |
| Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -1273 |
| 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 | Upstream | -1273 |
| Motif_638 | ABRE binding site motif | Not available | Upstream | -1273 |
| Motif_641 | LRENPCABE | LRE; A positive light regulatory element in tobacco CAB (cab-E) gene; Located at -241 | Upstream | -1272 |
| 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 | Upstream | -1056 |
| Motif_92 | ABREATRD22 | ABRE (ABA responsive element) in Arabidopsis dehydration-responsive gene rd22 | Upstream | -1272 |
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