| Matrix_104 | PI | Not available | Upstream | -829 |
| Matrix_105 | SPL14 | Not available | Upstream | -837 |
| Matrix_113 | ABI5 | Not available | Upstream | -829 |
| Matrix_122 | ABF1;AREB2 | Not available | Upstream | -829 |
| Matrix_129 | ABF1 | Not available | Upstream | -828 |
| Matrix_134 | ABF1 | Not available | Upstream | -827 |
| Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -827 |
| Matrix_156 | POC1 | Not available | Upstream | -827 |
| Matrix_165 | KNAT1 | Not available | Upstream | -588 |
| Matrix_17 | WRKY22 | Not available | Upstream | -560 |
| Matrix_189 | WRI1 | An AP2-type transcription factor, WRINKLED1, of Arabidopsis thaliana binds to the AW-box sequence conserved among proximal upstream regions of genes involved in fatty acid synthesis | Upstream | -288 |
| Matrix_214 | AP1 | Not available | Upstream | -830 |
| Matrix_232 | TCP23 | Not available | Upstream | -560 |
| Matrix_24 | POC1 | Not available | Upstream | -568 |
| Matrix_251 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -829 |
| Matrix_263 | WRKY33;WRKY19;WRKY32 | Not available | Upstream | -560 |
| Matrix_264 | ATAREB1 | Not available | Upstream | -831 |
| Matrix_294 | MEE35 | Not available | Upstream | -559 |
| Matrix_3 | WRKY48 | Not available | Upstream | -560 |
| Matrix_342 | SPL14 | Identification of a Consensus DNA-Binding Site for the Arabidopsis thaliana SBP Domain Transcription Factor, AtSPL14, and Binding Kinetics by Surface Plasmon Resonance | Upstream | -837 |
| Matrix_38 | SPL14 | Not available | Upstream | -831 |
| Matrix_403 | BZR1 | Not available | Upstream | -830 |
| Matrix_415 | WRKY27 | Not available | Upstream | -560 |
| Matrix_443 | AGL15 | Not available | Upstream | -830 |
| Matrix_505 | GATA8 | Not available | Upstream | -271 |
| Matrix_507 | TCP3 | Not available | Upstream | -560 |
| Matrix_55 | PIF3 | Not available | Upstream | -829 |
| Matrix_75 | WRKY29 | Not available | Upstream | -560 |
| 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 | -826 |
| | | Upstream | -562 |
| 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 | -826 |
| | | Upstream | -562 |
| 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 | -827 |
| | | Upstream | -826 |
| | | Upstream | -562 |
| Motif_244 | ABRE-like binding site motif | Not available | Upstream | -828 |
| | | Upstream | -826 |
| | | Upstream | -562 |
| Motif_249 | DPBF1&2 binding site motif | A novel class of bZIP transcription factors, DPBF-1 and 2 (Dc3 promoter-binding factor-1 and 2) binding core sequence; Found in the carrot Dc3 gene promoter; Dc3 expression is normally embryo-specific, and also can be induced by ABA; The Arabidopsis abscisic acid response gene ABI5 encodes a bZIP transcription factor; abi5 mutant have a pleiotropic defects in ABA response; ABI5 regulates a subset of late embryogenesis-abundant genes; GIA1 (growth-insensitivity to ABA) is identical to ABI5; Isolation of a novel class of bZIP transcription factors that interact with ABA-responsive and embryo-specification elements in the Dc3 promoter using a modified yeast one-hybrid system | Upstream | -827 |
| Motif_254 | MYB46;MYB83 | MYB46 and MYB83 bind to the SMRE sites and directly activate a suite of transcription factors and secondary wall biosynthetic genes | Upstream | -816 |
| Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -826 |
| | | Upstream | -562 |
| Motif_391 | REALPHALGLHCB21 | REalpha found in Lemna gibba Lhcb21 gene promoter; Located at -134 to -129; Binding site of proteins of whole-cell extracts; The DNA binding activity is high in etiolated plants but much lower in green plants; Required for phytochrome regulation | Upstream | -817 |
| Motif_419 | MYB4 binding site motif | Not available | Upstream | -816 |
| Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -826 |
| | | Upstream | -562 |
| Motif_511 | RYREPEATGMGY2 | RY repeat motif (CATGCAT); Present in the 5' region of the soybean glycinin gene (Gy2) | Upstream | -663 |
| Motif_666 | MYB binding site promoter | A flower-specific Myb protein activates transcription of phenylpropanoid biosynthetic genes | Upstream | -817 |
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