Matrix_101 | ERF5 | Not available | Upstream | -107 |
Matrix_104 | PI | Not available | Upstream | -249 |
| | | Upstream | -250 |
Matrix_109 | GBF3 | Not available | Upstream | -249 |
| | | Upstream | -250 |
| | | Upstream | -282 |
| | | Upstream | -283 |
Matrix_113 | ABI5 | Not available | Upstream | -249 |
| | | Upstream | -250 |
| | | Upstream | -251 |
| | | Upstream | -252 |
Matrix_120 | BEE2 | Not available | Upstream | -250 |
| | | Upstream | -251 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -249 |
| | | Upstream | -250 |
Matrix_128 | TGA2 | Not available | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -638 |
Matrix_129 | ABF1 | Not available | Upstream | -250 |
| | | Upstream | -251 |
Matrix_133 | DYT1 | Not available | Upstream | -372 |
Matrix_134 | ABF1 | Not available | Upstream | -251 |
| | | Upstream | -252 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -251 |
| | | Upstream | -252 |
Matrix_147 | ERF3;AT1G80580 | Not available | Upstream | -9 |
| | | Upstream | -10 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -246 |
| | | Upstream | -247 |
Matrix_151 | ASIL1 | Not available | Upstream | -106 |
| | | Upstream | -107 |
| | | Upstream | -417 |
Matrix_154 | AT1G22190;AT1G36060;AT1G64380;RAP2.4;AT2G20880;AT2G22200;AT4G13620;AT4G28140;AT4G39780;AT5G65130 | Not available | Upstream | -105 |
Matrix_155 | RAP2.6;ERF110;ABR1 | Not available | Upstream | -9 |
| | | Upstream | -108 |
| | | Upstream | -109 |
Matrix_156 | POC1 | Not available | Upstream | -251 |
| | | Upstream | -252 |
Matrix_158 | AT1G03040;LRL1;UNE12;LRL2;LRL3 | Not available | Upstream | -250 |
| | | Upstream | -251 |
Matrix_166 | TGA4 | Not available | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -611 |
Matrix_17 | WRKY22 | Not available | Upstream | -512 |
Matrix_19 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -250 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -247 |
| | | Upstream | -248 |
| | | Upstream | -282 |
| | | Upstream | -283 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -247 |
| | | Upstream | -248 |
Matrix_200 | PIL5;AT4G28790;AT4G28800;AT4G28811;AT4G28815 | Not available | Upstream | -250 |
| | | Upstream | -251 |
Matrix_206 | CUC1;ANAC100 | Not available | Upstream | -280 |
Matrix_214 | AP1 | Not available | Upstream | -248 |
| | | Upstream | -249 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -247 |
| | | Upstream | -248 |
| | | Upstream | -251 |
| | | Upstream | -252 |
| | | Upstream | -282 |
| | | Upstream | -283 |
Matrix_224 | ERF1 | Not available | Upstream | -9 |
Matrix_234 | RAP2.3 | Not available | Upstream | -8 |
Matrix_235 | WRKY67;WRKY64;WRKY63;WRKY66 | Not available | Upstream | -513 |
Matrix_24 | POC1 | Not available | Upstream | -246 |
| | | Upstream | -247 |
| | | Upstream | -277 |
| | | Upstream | -278 |
Matrix_243 | RAP2.12;RAP2.2 | Not available | Upstream | -106 |
Matrix_247 | PIF3 | Not available | Upstream | -250 |
| | | Upstream | -251 |
Matrix_252 | RAP2.6 | Not available | Upstream | -8 |
Matrix_253 | ETT | Not available | Upstream | -245 |
Matrix_261 | ATERF-1 | Not available | Upstream | -107 |
Matrix_264 | ATAREB1 | Not available | Upstream | -247 |
| | | Upstream | -248 |
| | | Upstream | -250 |
| | | Upstream | -251 |
Matrix_278 | AtbZIP44 | Not available | Upstream | -280 |
| | | Upstream | -281 |
Matrix_287 | ERF2 | Not available | Upstream | -107 |
Matrix_288 | RAP2.3 | Not available | Upstream | -9 |
Matrix_295 | ERF1 | Not available | Upstream | -9 |
Matrix_296 | GBF2 | Not available | Upstream | -250 |
| | | Upstream | -251 |
| | | Upstream | -282 |
| | | Upstream | -283 |
Matrix_3 | WRKY48 | Not available | Upstream | -512 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -250 |
| | | Upstream | -251 |
| | | Upstream | -282 |
| | | Upstream | -283 |
Matrix_301 | PIL5 | Not available | Upstream | -245 |
| | | Upstream | -246 |
| | | Upstream | -276 |
| | | Upstream | -277 |
Matrix_306 | TGA1 | TGA1 and G-box binding factors: two distinct classes of Arabidopsis leucine zipper proteins compete for the G-box-like element TGACGTGG | Upstream | -278 |
| | | Upstream | -279 |
Matrix_311 | TGA1 | Not available | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -638 |
Matrix_325 | WRKY4;WRKY3;WRKY58;ATWRKY34;WRKY20;ATWRKY2 | Not available | Upstream | -513 |
Matrix_330 | MYC2;TT8 | Not available | Upstream | -250 |
| | | Upstream | -251 |
Matrix_331 | GBF1 | Not available | Upstream | -249 |
| | | Upstream | -250 |
| | | Upstream | -282 |
| | | Upstream | -283 |
Matrix_332 | SPT;ALC | Not available | Upstream | -251 |
| | | Upstream | -252 |
Matrix_338 | AP2 | Not available | Upstream | -247 |
| | | Upstream | -248 |
Matrix_344 | ATERF15;AT4G18450 | Not available | Upstream | -9 |
| | | Upstream | -10 |
| | | Upstream | -107 |
| | | Upstream | -108 |
Matrix_356 | PRR5 | Not available | Upstream | -247 |
| | | Upstream | -248 |
| | | Upstream | -274 |
| | | Upstream | -275 |
Matrix_360 | ORA59 | Not available | Upstream | -9 |
| | | Upstream | -10 |
Matrix_363 | RAP2.3 | Not available | Upstream | -9 |
Matrix_371 | MYB7;AtMYB6;AtMYB32;ATMYB4 | Not available | Upstream | -276 |
Matrix_374 | AT5G07580;AT5G61590 | Not available | Upstream | -9 |
| | | Upstream | -106 |
| | | Upstream | -107 |
| | | Upstream | -108 |
Matrix_378 | ATERF1 | Not available | Upstream | -8 |
Matrix_387 | ORA47 | Not available | Upstream | -105 |
Matrix_389 | ILR3 | Not available | Upstream | -250 |
| | | Upstream | -251 |
Matrix_395 | AT1G19210;ORA47;AT4G31060;AT5G21960 | Not available | Upstream | -106 |
Matrix_396 | AP3 | Not available | Upstream | -69 |
Matrix_399 | TGA1 | Not available | Upstream | -279 |
| | | Upstream | -280 |
Matrix_401 | MYB55 | Not available | Upstream | -275 |
Matrix_403 | BZR1 | Not available | Upstream | -248 |
| | | Upstream | -249 |
| | | Upstream | -279 |
| | | Upstream | -280 |
Matrix_406 | ATERF-7 | Not available | Upstream | -9 |
| | | Upstream | -10 |
Matrix_409 | DEAR3 | Not available | Upstream | -9 |
| | | Upstream | -106 |
| | | Upstream | -107 |
Matrix_415 | WRKY27 | Not available | Upstream | -239 |
| | | Upstream | -240 |
Matrix_433 | ATERF1 | Not available | Upstream | -106 |
| | | Upstream | -107 |
Matrix_438 | AtbZIP63 | Not available | Upstream | -279 |
| | | Upstream | -280 |
Matrix_443 | AGL15 | Not available | Upstream | -248 |
| | | Upstream | -249 |
Matrix_448 | ATERF6 | Not available | Upstream | -106 |
| | | Upstream | -107 |
Matrix_45 | DRN | Not available | Upstream | -9 |
| | | Upstream | -10 |
Matrix_456 | bZIP60 | Not available | Upstream | -281 |
Matrix_457 | TGA2 | Not available | Upstream | -610 |
Matrix_462 | ATERF-8 | Not available | Upstream | -9 |
| | | Upstream | -10 |
| | | Upstream | -105 |
| | | Upstream | -106 |
Matrix_465 | MYC4 | Not available | Upstream | -250 |
| | | Upstream | -251 |
Matrix_466 | PRR5 | Not available | Upstream | -240 |
| | | Upstream | -241 |
Matrix_473 | RRTF1 | Not available | Upstream | -8 |
Matrix_480 | BES1 | Not available | Upstream | -249 |
| | | Upstream | -250 |
| | | Upstream | -251 |
Matrix_484 | ATERF13 | Not available | Upstream | -9 |
| | | Upstream | -107 |
Matrix_488 | ABF1 | Not available | Upstream | -249 |
| | | Upstream | -250 |
| | | Upstream | -280 |
| | | Upstream | -281 |
Matrix_5 | AT5G51190;ERF104 | Not available | Upstream | -9 |
| | | Upstream | -10 |
| | | Upstream | -107 |
| | | Upstream | -108 |
Matrix_50 | ATERF14;AT5G43410 | Not available | Upstream | -9 |
Matrix_517 | ERF12 | Not available | Upstream | -9 |
| | | Upstream | -10 |
Matrix_53 | MYC3 | Not available | Upstream | -252 |
| | | Upstream | -253 |
Matrix_55 | PIF3 | Not available | Upstream | -249 |
| | | Upstream | -250 |
Matrix_56 | BZIP17;BZIP28;BZIP49 | Not available | Upstream | -280 |
Matrix_59 | AT4G00238;AT4G00250 | Not available | Upstream | -106 |
Matrix_60 | AT1G01260;AT5G57150 | Not available | Upstream | -251 |
| | | Upstream | -252 |
Matrix_65 | POC1;PIL1 | Not available | Upstream | -252 |
Matrix_7 | PIF4 | Not available | Upstream | -250 |
| | | Upstream | -251 |
| | | Upstream | -252 |
| | | Upstream | -253 |
Matrix_75 | WRKY29 | Not available | Upstream | -512 |
Matrix_77 | PRR5 | Not available | Upstream | -248 |
| | | Upstream | -249 |
Matrix_80 | BIM1 | Not available | Upstream | -249 |
| | | Upstream | -250 |
Matrix_86 | CRF5;CRF6;CRF4 | Not available | Upstream | -9 |
Motif_104 | CAREOSREP1 | CAREs (CAACTC regulatory elements) found in the promoter region of a cystein proteinase (REP-1) gene in rice | Upstream | -232 |
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 | -252 |
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 | Upstream | -330 |
Motif_193 | GLK1 | GLK transcription factors coordinate expression of the photosynthetic apparatus in Arabidopsis | Upstream | -298 |
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 | -252 |
| | | Upstream | -330 |
Motif_197 | HY5 | Arabidopsis bZIP protein HY5 directly interacts with light-responsive promoters in mediating light control of gene expression | Upstream | -250 |
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 | -251 |
| | | Upstream | -252 |
| | | Upstream | -897 |
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 | Upstream | -330 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -250 |
| | | Upstream | -283 |
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 | -251 |
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 | -331 |
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 | -10 |
Motif_329 | AMMORESIIUDCRNIA1 | Motifs (IIU and IID) found in the Chlamydomonas Nia1 gene promoter; Involved in ammonium-response; Located between -231 and -219 and also between -76 and -65; Involved in Nia1 transcription activation | Upstream | -271 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Upstream | -330 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -252 |
| | | Upstream | -283 |
| | | Upstream | -635 |
Motif_353 | HEXAMERATH4 | hexamer motif of Arabidopsis thaliana histone H4 promoter;Identification of cis-elements regulating the expression of an Arabidopsis histone H4 gene | Upstream | -245 |
Motif_358 | UP2ATMSD | Up2 motif found in 193 of the 1184 up-regulated genes after main stem decapitation in Arabidopsis | Upstream | -70 |
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 | -144 |
Motif_399 | UPRMOTIFIAT | Motif I 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 | -282 |
Motif_440 | TGA1 binding site motif | Hex motif; Binding site of Arabidopsis bZIP protein TGA1 and G box binding factor GBF1; TGA1 and members of the GBF family differ in their DNA binding properties; G-Box-like element;TGA1 and G-box binding factors: two distinct classes of Arabidopsis leucine zipper proteins compete for the G-box-like element TGACGTGG | Upstream | -282 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -252 |
Motif_450 | E2FCONSENSUS | E2F consensus sequence of all different E2F-DP-binding motifs that were experimentally verified in plants | Upstream | -104 |
Motif_453 | HEXMOTIFTAH3H4 | hexamer motif found in promoter of wheat histone genes H3 and H4; CaMV35S; NOS; Binding with HBP-1A and HBP-1B; Binding site of wheat nuclear protein HBP-1 (histone DNA binding protein-1); HBP-1 has a leucine zipper motif; hexamer motif in type 1 element may play important roles in regulation of replication- dependent but not of replication-independent expression of the wheat histone H3 gene;Rice OBF1-homodimer-binding site | Upstream | -282 |
| | | Upstream | -612 |
| | | Upstream | -639 |
| | | Upstream | -641 |
Motif_497 | ARE1 | ARE (antioxidant response element); antioxidant response element of rat glutathione S-transferase Ya subunit, and rat NAD(P)H:quinone reductase genes | Upstream | -280 |
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 | -312 |
Motif_51 | MYB46 | Identification of a cis-acting regulatory motif recognized by MYB46, a master transcriptional regulator of secondary wall biosynthesis | Upstream | -331 |
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 | -247 |
Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -284 |
Motif_573 | HY5 | Arabidopsis bZIP protein HY5 directly interacts with light-responsive promoters in mediating light control of gene expression | Upstream | -281 |
Motif_576 | TGACGTVMAMY | TGACGT motif found in the Vigna mungo alpha-Amylase (Amy) gene promoter; Located between -128 and -123; Required for high level expression of alpha-Amylase in the cotyledons of the germinated seeds | Upstream | -282 |
| | | Upstream | -612 |
| | | Upstream | -639 |
| | | Upstream | -641 |
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 | -122 |
| | | Upstream | -247 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Upstream | -145 |
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 | -250 |
| | | Upstream | -284 |
Motif_648 | ARE2 | ARE (antioxidant response element); antioxidant response element of mouse metallothionein-I (MT-I) gene; Consensus sequence of mouse MT-I and MT-II genes, and MT genes isolated from rat, hamster, human, sheep, chicken, Drosophila melanogaster, C. elegans; See ARE1 | Upstream | -281 |
Motif_652 | AUXRETGA2GMGH3 | TGA-box #2 in putative auxin-resonsive element (AUXRE) E1 of soybean GH3 promoter; Strong binding site for proteins in plant nuclear extracts; Hex-like element; E1 element=-249 to -203; E2 element=-241 to -224 | Upstream | -282 |
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 | Upstream | -435 |
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 | -26 |
| | | Upstream | -47 |
| | | Upstream | -49 |
| | | Upstream | -51 |
| | | Upstream | -53 |
Motif_72 | GADOWNAT | Sequence present in 24 genes in the GA-down regulated d1 cluster (106 genes) found in Arabidopsis seed germination; This motif is similar to ABRE | Upstream | -250 |
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 | -254 |
| | | Upstream | -285 |