Matrix_101 | ERF5 | Not available | Upstream | -191 |
| | | Upstream | -192 |
Matrix_104 | PI | Not available | Upstream | -345 |
| | | Upstream | -346 |
| | | Upstream | -1275 |
Matrix_108 | PIF4 | Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -345 |
| | | Upstream | -346 |
Matrix_109 | GBF3 | Not available | Upstream | -345 |
| | | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_110 | ATABI4;AT3G57600 | Not available | Upstream | -190 |
| | | Upstream | -191 |
Matrix_113 | ABI5 | Not available | Upstream | -345 |
| | | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -342 |
| | | Upstream | -343 |
| | | Upstream | -344 |
Matrix_119 | RRTF1 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_120 | BEE2 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -345 |
| | | Upstream | -346 |
| | | Upstream | -347 |
Matrix_129 | ABF1 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_134 | ABF1 | Not available | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_138 | RRTF1 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_14 | ZCW32;AT5G62610 | Not available | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -347 |
| | | Upstream | -348 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -342 |
Matrix_156 | POC1 | Not available | Upstream | -345 |
| | | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_158 | AT1G03040;LRL1;UNE12;LRL2;LRL3 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_169 | E2F1 | Not available | Upstream | -350 |
Matrix_19 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -343 |
Matrix_190 | ATERF1 | Not available | Upstream | -190 |
| | | Upstream | -191 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -343 |
| | | Upstream | -344 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -343 |
| | | Upstream | -344 |
Matrix_200 | PIL5;AT4G28790;AT4G28800;AT4G28811;AT4G28815 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_214 | AP1 | Not available | Upstream | -344 |
| | | Upstream | -345 |
| | | Upstream | -1274 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -343 |
| | | Upstream | -344 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_224 | ERF1 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_233 | MYC3 | Not available | Upstream | -347 |
| | | Upstream | -348 |
Matrix_234 | RAP2.3 | Not available | Upstream | -191 |
| | | Upstream | -192 |
Matrix_24 | POC1 | Not available | Upstream | -342 |
Matrix_247 | PIF3 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_25 | AP3 | Not available | Upstream | -140 |
Matrix_252 | RAP2.6 | Not available | Upstream | -191 |
| | | Upstream | -192 |
Matrix_259 | AT1G50680;AT1G51120 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_261 | ATERF-1 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_264 | ATAREB1 | Not available | Upstream | -343 |
| | | Upstream | -344 |
| | | Upstream | -346 |
| | | Upstream | -347 |
Matrix_277 | RAP2.6 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_287 | ERF2 | Not available | Upstream | -191 |
| | | Upstream | -192 |
Matrix_288 | RAP2.3 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_295 | ERF1 | Not available | Upstream | -193 |
| | | Upstream | -194 |
Matrix_296 | GBF2 | Not available | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_301 | PIL5 | Not available | Upstream | -341 |
| | | Upstream | -342 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_323 | BIM3 | Not available | Upstream | -346 |
Matrix_326 | AT5G07310;Rap2.6L;AT5G61890 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_330 | MYC2;TT8 | Not available | Upstream | -346 |
Matrix_331 | GBF1 | Not available | Upstream | -345 |
| | | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_332 | SPT;ALC | Not available | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_334 | AT3G23230 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_338 | AP2 | Not available | Upstream | -343 |
| | | Upstream | -344 |
Matrix_339 | bHLH104 | Not available | Upstream | -346 |
Matrix_343 | AT2G33710 | Not available | Upstream | -191 |
| | | Upstream | -192 |
Matrix_345 | POC1 | Not available | Upstream | -342 |
| | | Upstream | -343 |
Matrix_355 | ERF10;ERF11 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_356 | PRR5 | Not available | Upstream | -339 |
| | | Upstream | -340 |
| | | Upstream | -344 |
Matrix_359 | FLC | Not available | Upstream | -344 |
| | | Upstream | -345 |
Matrix_360 | ORA59 | Not available | Upstream | -190 |
| | | Upstream | -191 |
| | | Upstream | -193 |
| | | Upstream | -194 |
Matrix_363 | RAP2.3 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_369 | AT2G18300 | Not available | Upstream | -344 |
| | | Upstream | -345 |
| | | Upstream | -346 |
| | | Upstream | -347 |
Matrix_372 | ANAC81 | DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus | Upstream | -138 |
| | | Upstream | -140 |
Matrix_374 | AT5G07580;AT5G61590 | Not available | Upstream | -192 |
| | | Upstream | -193 |
| | | Upstream | -913 |
Matrix_378 | ATERF1 | Not available | Upstream | -191 |
| | | Upstream | -192 |
Matrix_388 | SNZ;SMZ;TOE2 | Not available | Upstream | -529 |
Matrix_389 | ILR3 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_396 | AP3 | Not available | Upstream | -499 |
Matrix_403 | BZR1 | Not available | Upstream | -344 |
| | | Upstream | -345 |
Matrix_405 | DREB2C | Not available | Upstream | -190 |
| | | Upstream | -191 |
Matrix_406 | ATERF-7 | Not available | Upstream | -193 |
| | | Upstream | -194 |
Matrix_408 | GATA12 | Not available | Downstream | 3745 |
Matrix_414 | AGL15 | Not available | Upstream | -159 |
| | | Upstream | -161 |
Matrix_416 | ASL5 | Not available | Upstream | -296 |
Matrix_426 | CRF1;CRF2 | Not available | Upstream | -192 |
| | | Upstream | -193 |
| | | Upstream | -916 |
Matrix_438 | AtbZIP63 | Not available | Upstream | -344 |
| | | Upstream | -346 |
Matrix_443 | AGL15 | Not available | Upstream | -344 |
| | | Upstream | -345 |
| | | Upstream | -1274 |
Matrix_449 | BIM2 | Not available | Upstream | -346 |
Matrix_465 | MYC4 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_473 | RRTF1 | Not available | Upstream | -191 |
| | | Upstream | -192 |
Matrix_48 | PI | Not available | Upstream | -217 |
Matrix_480 | BES1 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_484 | ATERF13 | Not available | Upstream | -193 |
| | | Upstream | -194 |
Matrix_488 | ABF1 | Not available | Upstream | -338 |
Matrix_497 | AP3 | Not available | Upstream | -208 |
Matrix_50 | ATERF14;AT5G43410 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_506 | DRNL;ATERF-4 | Not available | Upstream | -192 |
| | | Upstream | -193 |
| | | Upstream | -916 |
Matrix_514 | DYT1 | Regulation of the Arabidopsis anther transcriptome by DYT1 for pollen development | Upstream | -344 |
Matrix_53 | MYC3 | Not available | Upstream | -344 |
| | | Upstream | -345 |
| | | Upstream | -348 |
| | | Upstream | -349 |
Matrix_55 | PIF3 | Not available | Upstream | -345 |
| | | Upstream | -346 |
Matrix_56 | BZIP17;BZIP28;BZIP49 | Not available | Upstream | -347 |
Matrix_60 | AT1G01260;AT5G57150 | Not available | Upstream | -347 |
| | | Upstream | -348 |
Matrix_64 | PIF5 | Not available | Upstream | -347 |
| | | Upstream | -348 |
Matrix_65 | POC1;PIL1 | Not available | Upstream | -347 |
| | | Upstream | -348 |
Matrix_7 | PIF4 | Not available | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
| | | Upstream | -349 |
Matrix_77 | PRR5 | Not available | Upstream | -344 |
| | | Upstream | -345 |
| | | Upstream | -346 |
Matrix_80 | BIM1 | Not available | Upstream | -345 |
| | | Upstream | -346 |
| | | Upstream | -347 |
| | | Upstream | -348 |
Matrix_86 | CRF5;CRF6;CRF4 | Not available | Upstream | -192 |
Matrix_91 | CRF3 | Not available | Upstream | -192 |
| | | Upstream | -193 |
Matrix_95 | LFY | Not available | Upstream | -291 |
Motif_104 | CAREOSREP1 | CAREs (CAACTC regulatory elements) found in the promoter region of a cystein proteinase (REP-1) gene in rice | Upstream | -103 |
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 | -316 |
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) | Upstream | -210 |
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 | -348 |
Motif_182 | MYB2CONSENSUSAT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis; see MYB2 and MYBATRD22 | Downstream | 4266 |
| | | Upstream | -180 |
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 | Downstream | 4266 |
| | | Upstream | -348 |
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 | -346 |
| | | Upstream | -347 |
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 | -347 |
| | | Upstream | -348 |
Motif_221 | MYBCORE | Binding site for all animal MYB and at least two plant MYB proteins ATMYB1 and ATMYB2, both isolated from Arabidopsis; ATMYB2 is involved in regulation of genes that are responsive to water stress in Arabidopsis; A petunia MYB protein (MYB.Ph3) is involved in regulation of flavonoid biosynthesis | Downstream | 4266 |
| | | Downstream | 3586 |
| | | Upstream | -180 |
Motif_243 | TELOBOXATEEF1AA1 | telo-box (telomere motif) found in the Arabidopsis (A.t.) eEF1AA1 gene promoter; Conserved in all known plant eEF1A gene promoters; Found in the 5' region of numerous genes encoding components of the translational apparatus; Required for the activation of expression in root primordia; Acts co-operatively with tef-box; Binding site of AtPur alpha-1; Plant interstitial telomere mitifs participate in the control of gene expression in root meristems | Upstream | -112 |
| | | Upstream | -500 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -346 |
| | | Upstream | -348 |
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 | Downstream | 3716 |
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 | -346 |
| | | Upstream | -348 |
Motif_300 | ACGTROOT1;HY5 | Arabidopsis bZIP protein HY5 directly interacts with light-responsive promoters in mediating light control of gene expression. ACGT motif related to root expression; Gene: synthetic; perfect palindromic sequence (PA) containing G-box-related sequence; transacting factor: TAF-1; Binding of SGBF-1 (a Soybean G-box binding bZIP transcription factor) to ABRE is enhanced by SCOF-1 (a zinc finger protein ); Transcription of SCOF-1 is induced by low temperature and ABA | Upstream | -346 |
Motif_305 | SP1SV40 | SP-1 binding site (GC box) in enhancer regions of SV40 and human metallothionein IIA (hMT IIA) | Downstream | 3419 |
Motif_309 | GATA promoter motif | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | Downstream | 3402 |
Motif_313 | ERF1 BS in AtCHI-B | Core of GCC-box found in many pathogen-responsive genes such as PDF1.2, Thi2.1, and PR4; Has been shown to function as ethylene-responsive element; Appears to play important roles in regulating jasmonate-responsive gene expression; Tomato Pti4 (ERF) regulates defence-related gene expression via GCC box and non-GCC box cis elements (Myb1 (GTTAGTT) and G-box(CACGTG)); Nuclear events in ethylene signaling: a transcriptional cascade mediated by ETHYLENE-INSENSITIVE3 and ETHYLENE-RESPONSE-FACTOR1;Molecular responses to dehydration and low temperature | Upstream | -194 |
Motif_320 | AGCBOXNPGLB | AGC box repeated twice in a 61 bp enhancer element in tobacco class I beta-1,3-glucanase (GLB) gene;GCC-box; Binding sequence of Arabidopsis AtERFs; AtERF1,2 and 5 functioned as activators of GCC box-dependent transcription; AtERF3 and 4 acted as repressors; AtERF proteins are stress signal-response factors; EREBP2 binding site; Conserved in most PR-protein genes; Rice MAPK (BWMK1) phosphorylates OS EREBP1, which enhance DNA-binding activity of the factor to the GCC box | Upstream | -193 |
Motif_332 | SV40COREENHAN | SV40 core enhancer; Similar sequences found in rbcS genes | Downstream | 3576 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Downstream | 4266 |
| | | Upstream | -180 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -348 |
| | | Upstream | -602 |
Motif_358 | UP2ATMSD | Up2 motif found in 193 of the 1184 up-regulated genes after main stem decapitation in Arabidopsis | Downstream | 3606 |
| | | Upstream | -112 |
| | | Upstream | -500 |
Motif_419 | MYB4 binding site motif | Not available | Downstream | 3716 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -347 |
| | | Upstream | -348 |
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 | -345 |
Motif_469 | QELEMENTZMZM13 | Q(quantitative)-element in maize ZM13 gene promoter; Found at -107 to -102; Involved in expression enhancing activity; ZM13 is a maize homolog of tomato LAT52 gene; ZM13 is a pollen-specific maize gene | Upstream | -301 |
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 | -347 |
Motif_504 | LFY | Structural basis for LEAFY floral switch function and similarity with helix-turn-helix proteins | Upstream | -326 |
Motif_552 | MRE1 | MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1 | Upstream | -278 |
Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -346 |
| | | Upstream | -349 |
Motif_609 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Upstream | -229 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Upstream | -147 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Downstream | 3575 |
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 | -346 |
| | | Upstream | -349 |
Motif_638 | ABRE binding site motif | Not available | Upstream | -346 |
| | | Upstream | -348 |
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 | 3804 |
| | | Downstream | 3401 |
| | | Upstream | -146 |
| | | Upstream | -319 |
| | | Upstream | -320 |
| | | Upstream | -512 |
Motif_672 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Upstream | -229 |
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 | Upstream | -146 |
Motif_683 | AtMYB2 BS in RD22 | Binding site for MYB (ATMYB2) in dehydration-responsive gene, rd22; MYB binding site in rd22 gene of Arabidopsis thaliana; ABA-induction; Located at ca. -141 of rd22 gene; Also MYC at ca. -200 of rd22 gene; Role of Arabidopsis MYC and MYB homologs in drought- and abscisic acid-regulated gene expression | Downstream | 3576 |
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 | -159 |
| | | Upstream | -161 |
| | | Upstream | -1631 |
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 | -350 |
Motif_98 | SEF3MOTIFGM | SEF3 binding site; Soybean consensus sequence found in the 5' upstream region of beta-conglycinin (7S globulin) gene; AACCCA(-27bp-)AACCCA; SEF=soybean embryo factor; SEF2; SEF3; SEF4 | Upstream | -207 |