Matrix_104 | PI | Not available | Upstream | -403 |
| | | Upstream | -404 |
Matrix_108 | PIF4 | Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -403 |
| | | Upstream | -404 |
Matrix_109 | GBF3 | Not available | Upstream | -403 |
| | | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -406 |
Matrix_113 | ABI5 | Not available | Upstream | -403 |
| | | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -406 |
Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -401 |
| | | Upstream | -402 |
Matrix_120 | BEE2 | Not available | Upstream | -404 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -403 |
| | | Upstream | -404 |
Matrix_129 | ABF1 | Not available | Upstream | -404 |
| | | Upstream | -405 |
Matrix_134 | ABF1 | Not available | Upstream | -404 |
Matrix_14 | ZCW32;AT5G62610 | Not available | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -1135 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -400 |
| | | Upstream | -401 |
Matrix_151 | ASIL1 | Not available | Upstream | -372 |
Matrix_156 | POC1 | Not available | Upstream | -403 |
| | | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -406 |
Matrix_158 | AT1G03040;LRL1;UNE12;LRL2;LRL3 | Not available | Upstream | -404 |
Matrix_160 | RVE1 | Not available | Downstream | 1773 |
Matrix_161 | MYBC1;AT3G10760;LUX;AT5G05090;AT5G59570 | Not available | Upstream | -438 |
Matrix_173 | ZAP1 | Not available | Upstream | -460 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -401 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -401 |
| | | Upstream | -402 |
Matrix_197 | NAP | Not available | Upstream | -464 |
| | | Upstream | -465 |
Matrix_200 | PIL5;AT4G28790;AT4G28800;AT4G28811;AT4G28815 | Not available | Upstream | -404 |
Matrix_214 | AP1 | Not available | Upstream | -402 |
| | | Upstream | -403 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -401 |
| | | Upstream | -402 |
| | | Upstream | -405 |
| | | Upstream | -406 |
Matrix_220 | WRKY18 | Not available | Upstream | -463 |
| | | Upstream | -464 |
Matrix_233 | MYC3 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_235 | WRKY67;WRKY64;WRKY63;WRKY66 | Not available | Upstream | -464 |
Matrix_24 | POC1 | Not available | Upstream | -400 |
Matrix_247 | PIF3 | Not available | Upstream | -404 |
| | | Upstream | -405 |
Matrix_259 | AT1G50680;AT1G51120 | Not available | Upstream | -404 |
Matrix_260 | CAMTA3 | Not available | Upstream | -458 |
Matrix_264 | ATAREB1 | Not available | Upstream | -401 |
| | | Upstream | -402 |
| | | Upstream | -404 |
| | | Upstream | -405 |
Matrix_275 | ZAP1 | Characterization of a zinc-dependent transcriptional activator from Arabidopsis | Upstream | -462 |
Matrix_285 | DDF1 | Not available | Upstream | -454 |
Matrix_296 | GBF2 | Not available | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -406 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -406 |
Matrix_301 | PIL5 | Not available | Upstream | -399 |
| | | Upstream | -400 |
Matrix_305 | PIF4 | Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -402 |
| | | Upstream | -403 |
Matrix_331 | GBF1 | Not available | Upstream | -403 |
| | | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -406 |
Matrix_332 | SPT;ALC | Not available | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -406 |
| | | Upstream | -1135 |
Matrix_338 | AP2 | Not available | Upstream | -401 |
| | | Upstream | -402 |
Matrix_345 | POC1 | Not available | Upstream | -401 |
| | | Upstream | -402 |
Matrix_356 | PRR5 | Not available | Upstream | -401 |
Matrix_370 | WRKY50;WRKY51 | Not available | Upstream | -463 |
Matrix_389 | ILR3 | Not available | Upstream | -404 |
Matrix_403 | BZR1 | Not available | Upstream | -402 |
| | | Upstream | -403 |
Matrix_414 | AGL15 | Not available | Upstream | -48 |
Matrix_443 | AGL15 | Not available | Upstream | -402 |
| | | Upstream | -403 |
Matrix_470 | WRKY18 | Not available | Upstream | -463 |
Matrix_488 | ABF1 | Not available | Upstream | -396 |
| | | Upstream | -397 |
| | | Upstream | -403 |
| | | Upstream | -404 |
Matrix_504 | WRKY40 | Not available | Upstream | -464 |
Matrix_55 | PIF3 | Not available | Upstream | -403 |
| | | Upstream | -404 |
Matrix_56 | BZIP17;BZIP28;BZIP49 | Not available | Upstream | -457 |
Matrix_60 | AT1G01260;AT5G57150 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_64 | PIF5 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_65 | POC1;PIL1 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_7 | PIF4 | Not available | Upstream | -404 |
| | | Upstream | -405 |
Matrix_77 | PRR5 | Not available | Upstream | -402 |
Matrix_80 | BIM1 | Not available | Upstream | -403 |
Matrix_87 | AT1G19000 | Not available | Upstream | -880 |
| | | Upstream | -881 |
Motif_104 | CAREOSREP1 | CAREs (CAACTC regulatory elements) found in the promoter region of a cystein proteinase (REP-1) gene in rice | Downstream | 1654 |
Motif_116 | INRNTPSADB | Inr (initiator) elements found in the tobacco psaDb gene promoter without TATA boxes; Light-responsive transcription of psaDb depends on Inr, but not TATA box | Upstream | -71 |
Motif_134 | ANAC092 | NAC Transcription Factor ORE1 and Senescence-Induced BIFUNCTIONAL NUCLEASE1 (BFN1) Constitute a Regulatory Cascade in Arabidopsis | Downstream | 1764 |
Motif_136 | SEF4MOTIFGM7S | SEF4 binding site; Soybean consensus sequence found in 5'upstream region (-199) of beta-conglycinin (7S globulin) gene (Gmg17.1); Binding with SEF4 (soybean embryo factor 4) | Downstream | 1759 |
| | | Upstream | -132 |
Motif_168 | IBOX | I box; I-box; Conserved sequence upstream of light-regulated genes; Sequence found in the promoter region of rbcS of tomato and Arabidopsis; I box; Binding site of LeMYB1, that is a member of a novel class of myb-like proteins; LeMYBI act as a transcriptional activator; An evolutionarily conserved protein binding sequence upstream of a plant light-regulated gene | Upstream | -735 |
| | | Upstream | -880 |
Motif_174 | SREATMSD | sugar-repressive element (SRE) found in 272 of the 1592 down-regulated genes after main stem decapitation in Arabidopsis | Upstream | -881 |
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 | -406 |
Motif_181 | IBOXCORENT | I-box core motif in the CAMs (conserved DNA modular arrays) associated with light-responsive promoter regions | Upstream | -735 |
| | | Upstream | -879 |
Motif_189 | CMSRE1IBSPOA | CMSRE-1 (Carbohydrate Metabolite Signal Responsive Element 1) found in the promoter of sweet potato sporamin A gene | Upstream | -436 |
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 | -102 |
| | | Upstream | -406 |
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 | -404 |
Motif_210 | REBETALGLHCB21 | REbeta found in Lemna gibba Lhcb21 gene promoter; Located at -114 to -109; A GATA sequence created at a position six nucleotides upstream could replace the function of REbeta; Required for phytochrome regulation | Upstream | -882 |
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 | -405 |
| | | Upstream | -406 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -404 |
| | | Upstream | -406 |
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 | -173 |
| | | Upstream | -915 |
Motif_261 | S1FBOXSORPS1L21 | S1F box conserved both in spinach RPS1 and RPL21 genes encoding the plastid ribosomal protein S1 and L21, respectively; Negative element; Might play a role in downregulating RPS1 and RPL21 promoter activity | Upstream | -35 |
Motif_270 | ELRECOREPCRP1 | ElRE (Elicitor Responsive Element) core of parsley PR1 genes; consensus sequence of elements W1 and W2 of parsley PR1-1 and PR1-2 promoters; Box W1 and W2 are the binding site of WRKY1 and WRKY2, respectively; ERE; WA box; One of the W boxes found in the Parsley WRKY1 gene promoter; Required for elicitor responsiveness; WC box WB box and WC box constitute a palindrome; WRKY1 protein binding site; W-box found in thioredoxin h5 gene in Arabidopsis | Upstream | -465 |
Motif_279 | POLASIG3 | Plant polyA signal; Consensus sequence for plant polyadenylation signal | Downstream | 1716 |
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 | -404 |
Motif_292 | MYBPZM | Core of consensus maize P (myb homolog) binding site; 6 bp core; Maize P gene specifies red pigmentation of kernel pericarp, cob, and other floral organs; P binds to A1 gene, but not Bz1 gene; Maize C1 (myb homolog) activates both A1 and Bz1 genes | Upstream | -170 |
Motif_309 | GATA promoter motif | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | Upstream | -42 |
| | | Upstream | -93 |
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 | Upstream | -461 |
Motif_323 | MYB1LEPR | Tomato Pti4(ERF) regulates defence-related gene expression via GCC box and non-GCC box cis elements (Myb1(GTTAGTT), G box (CACGTG)) | Upstream | -176 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -406 |
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 | Downstream | 1688 |
| | | Upstream | -172 |
| | | Upstream | -917 |
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 | -437 |
Motif_408 | EVENINGAT | Evening element found 46 times in the promoters of 31 cycling genes in Arabidopsis thaliana; Required for circadian control of gene expression; EE (evening element) motif; Also found in the promoter of the Solanum melongena gene encoding cysteine protease, and identified as cis-element for its circadian regulation;Orchestrated transcription of key pathways in Arabidopsis by the circadian clock | Downstream | 1772 |
Motif_419 | MYB4 binding site motif | Not available | Upstream | -915 |
Motif_437 | ANAERO2CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1) | Upstream | -104 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -405 |
| | | Upstream | -406 |
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 | -405 |
Motif_48 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -824 |
| | | Upstream | -828 |
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 | Downstream | 1655 |
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 | -457 |
Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -404 |
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 | -457 |
Motif_599 | LREBOXIIPCCHS1;HY5 | BoxII; Light responsive element (LRE) found in the parsley CHS-1 (chalcone synthase-1) gene promoter; Required for light responsiveness; nuclear protein binding site; Highly conserved in various light inducible gene promoters; Arabidopsis bZIP protein HY5 directly interacts with light-responsive promoters in mediating light control of gene expression | Upstream | -404 |
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 | -404 |
Motif_638 | ABRE binding site motif | Not available | Upstream | -404 |
Motif_641 | LRENPCABE | LRE; A positive light regulatory element in tobacco CAB (cab-E) gene; Located at -241 | Upstream | -403 |
Motif_658 | GT1CONSENSUS | Consensus GT-1 binding site in many light-regulated genes, e.g., RBCS from many species, PHYA from oat and rice, spinach RCA and PETA, and bean CHS15; GT-1 can stabilize the TFIIA-TBP-DNA (TATA box) complex; The activation mechanism of GT-1 may be achieved through direct interaction between TFIIA and GT-1; Binding of GT-1-like factors to the PR-1a promoter influences the level of SA-inducible gene expression | Downstream | 1674 |
| | | Downstream | 1665 |
| | | Upstream | -30 |
| | | Upstream | -31 |
| | | Upstream | -43 |
| | | Upstream | -430 |
| | | Upstream | -928 |
Motif_666 | MYB binding site promoter | A flower-specific Myb protein activates transcription of phenylpropanoid biosynthetic genes | Upstream | -915 |
Motif_682 | GT1GMSCAM4 | GT-1 motif found in the promoter of soybean CaM isoform, SCaM-4; Plays a role in pathogen- and salt-induced SCaM-4 gene expression | Downstream | 1674 |
Motif_83 | CIACADIANLELHC | Region necessary for circadian expression of tomato Lhc gene | Upstream | -839 |