| Matrix_104 | PI | Not available | Upstream | -713 |
| Matrix_109 | GBF3 | Not available | Upstream | -713 |
| Matrix_113 | ABI5 | Not available | Upstream | -713 |
| Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -693 |
| Matrix_122 | ABF1;AREB2 | Not available | Upstream | -713 |
| Matrix_129 | ABF1 | Not available | Upstream | -712 |
| Matrix_14 | ZCW32;AT5G62610 | Not available | Upstream | -712 |
| Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -716 |
| Matrix_156 | POC1 | Not available | Upstream | -713 |
| Matrix_192 | FHY3/FAR1 | Not available | Upstream | -715 |
| Matrix_24 | POC1 | Not available | Upstream | -716 |
| Matrix_296 | GBF2 | Not available | Upstream | -712 |
| Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -712 |
| Matrix_301 | PIL5 | Not available | Upstream | -717 |
| Matrix_331 | GBF1 | Not available | Upstream | -713 |
| Matrix_332 | SPT;ALC | Not available | Upstream | -712 |
| Matrix_367 | REM1 | Not available | Upstream | -583 |
| Matrix_403 | BZR1 | Not available | Upstream | -714 |
| Matrix_488 | ABF1 | Not available | Upstream | -713 |
| Matrix_7 | PIF4 | Not available | Upstream | -712 |
| Matrix_77 | PRR5 | Not available | Upstream | -714 |
| Motif_129 | GAGAGMGSA1 | GAGA element found in the promoter of the heme and chlorophyll synthesis gene Gsa1 in soybean; GAGA binding protein (GBP) binds to (GA)n/(CT)n DNA | Upstream | -566 |
| | | Upstream | -564 |
| 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 | -710 |
| 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 | -712 |
| 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 | Upstream | -258 |
| | | Upstream | -240 |
| | | Upstream | -234 |
| 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 | -712 |
| Motif_365 | ARF1 binding site motif | ARF (auxin response factor) binding site found in the promoters of primary/early auxin response genes of Arabidopsis thaliana; AuxRE;Binding site of Arabidopsis ARF1 (Auxin response factor1); Sequence found in NDE element in Soybean SAUR (Small Auxin-Up RNA) 15A gene promoter;Found in D1 or D4 element in Soybean GH3 promoter; This element was enriched in the 5'-flanking region of genes up-regulated by both IAA and BL;Dimerization and DNA binding of auxin response factors | Upstream | -258 |
| | | Upstream | -240 |
| | | Upstream | -234 |
| 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 | Upstream | -593 |
| Motif_388 | CPRFPCCHS;AtbZIP1 | BoxII; Binding site of CPRF-1, -2, -3 and -4(Common Plant Regulatory Factor) in the parsley light responsive chalcone synthase (CHS) gene promoter; CPRF proteins are bZIP class transcription factors; CPRF proteins participates in the light-mediated activation of the CHS gene in parsley; ACE; The proline-rich domains of CPRF1 and 4 activate transcription; CPRF1-containing bZIP heterodimer interacts with ACE in vivo; ACE; Binding site of parsley bZIP factors CPRF1 and 4; Found in the parsley light responsive chalcone synthase (CHS) gene promoter; The proline-rich domains of CPRF1 and 4 activate transcription; CPRF1-containing bZIP heterodimer interacts with ACE in vivo; The arabidopsis bZIP1 transcription factor is involved in sugar signaling, protein networking, and DNA binding | Upstream | -713 |
| Motif_441 | GAGA8HVBKN3 | GA octodinucleotide repeat found in intron IV of the barley gene Bkn3; Binding site for GAGA-binding factor BBR | Upstream | -566 |
| | | Upstream | -564 |
| | | Upstream | -562 |
| | | Upstream | -252 |
| Motif_450 | E2FCONSENSUS | E2F consensus sequence of all different E2F-DP-binding motifs that were experimentally verified in plants | Upstream | -759 |
| 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 | Upstream | -598 |
| 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 | Upstream | -711 |
| Motif_525 | CRTDREHVCBF2 | Preferred sequence for AP2 transcriptional activator HvCBF2 of barley; Core CRT/DRE motif; HvCBF2 bound to a (G/a)(T/c)CGAC core motif; DNA binding is regulated by temperature | Upstream | -579 |
| Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -712 |
| 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 | Upstream | -713 |
| Motif_591 | CBFHV | Binding site of barley CBF1, and also of barley CBF2; CBF = C-repeat (CRT) binding factors; CBFs are also known as dehydration-responsive element (DRE) binding proteins (DREBs) | Upstream | -579 |
| 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 | -712 |
| Motif_638 | ABRE binding site motif | Not available | Upstream | -712 |
| Motif_69 | CTRMCAMV35S | CT-rich motif (inverted GAGA) found in a 60-nucleotide region (S1) downstream of the transcription start site of the CaMV 35S RNA; Can enhance gene expression; Inverted GAGA | Upstream | -566 |
| | | Upstream | -564 |
| | | Upstream | -562 |
| | | Upstream | -560 |
| | | Upstream | -558 |
| | | Upstream | -556 |
| | | Upstream | -554 |
| | | Upstream | -552 |
| | | Upstream | -253 |
| | | Upstream | -251 |
| | | Upstream | -249 |
| | | Upstream | -247 |
| | | Upstream | -245 |
| Motif_79 | UPRMOTIFIIAT | Motif II 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 | Upstream | -708 |
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