Matrix_104 | PI | Not available | Upstream | -201 |
| | | Upstream | -114 |
Matrix_108 | PIF4 | Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -114 |
| | | Upstream | -107 |
Matrix_109 | GBF3 | Not available | Upstream | -114 |
| | | Upstream | -112 |
Matrix_113 | ABI5 | Not available | Upstream | -114 |
| | | Upstream | -112 |
Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -204 |
| | | Upstream | -117 |
| | | Upstream | -116 |
Matrix_120 | BEE2 | Not available | Upstream | -113 |
| | | Upstream | -106 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -114 |
| | | Upstream | -113 |
Matrix_129 | ABF1 | Not available | Upstream | -200 |
| | | Upstream | -113 |
Matrix_134 | ABF1 | Not available | Upstream | -200 |
| | | Upstream | -112 |
Matrix_14 | ZCW32;AT5G62610 | Not available | Upstream | -113 |
| | | Upstream | -112 |
| | | Upstream | -106 |
| | | Upstream | -105 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -199 |
| | | Upstream | -112 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -117 |
| | | Upstream | -110 |
Matrix_153 | AP2 | Not available | Upstream | -107 |
Matrix_156 | POC1 | Not available | Upstream | -114 |
| | | Upstream | -112 |
Matrix_158 | AT1G03040;LRL1;UNE12;LRL2;LRL3 | Not available | Upstream | -113 |
| | | Upstream | -106 |
Matrix_19 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -116 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -112 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -116 |
Matrix_200 | PIL5;AT4G28790;AT4G28800;AT4G28811;AT4G28815 | Not available | Upstream | -113 |
| | | Upstream | -106 |
Matrix_214 | AP1 | Not available | Upstream | -202 |
| | | Upstream | -115 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -112 |
| | | Upstream | -109 |
Matrix_233 | MYC3 | Not available | Upstream | -112 |
| | | Upstream | -105 |
Matrix_24 | POC1 | Not available | Upstream | -117 |
Matrix_247 | PIF3 | Not available | Upstream | -113 |
Matrix_251 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -203 |
Matrix_259 | AT1G50680;AT1G51120 | Not available | Upstream | -113 |
Matrix_264 | ATAREB1 | Not available | Upstream | -200 |
| | | Upstream | -113 |
| | | Upstream | -109 |
Matrix_27 | ATAIB;ATNIG1 | Not available | Upstream | -105 |
| | | Upstream | -104 |
Matrix_296 | GBF2 | Not available | Upstream | -113 |
| | | Upstream | -112 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -113 |
| | | Upstream | -112 |
Matrix_301 | PIL5 | Not available | Upstream | -118 |
| | | Upstream | -112 |
| | | Upstream | -111 |
| | | Upstream | -105 |
Matrix_320 | MYC4 | Not available | Upstream | -105 |
Matrix_323 | BIM3 | Not available | Upstream | -113 |
| | | Upstream | -106 |
Matrix_330 | MYC2;TT8 | Not available | Upstream | -113 |
| | | Upstream | -106 |
Matrix_331 | GBF1 | Not available | Upstream | -114 |
| | | Upstream | -112 |
Matrix_332 | SPT;ALC | Not available | Upstream | -113 |
| | | Upstream | -112 |
| | | Upstream | -106 |
Matrix_338 | AP2 | Not available | Upstream | -116 |
Matrix_339 | bHLH104 | Not available | Upstream | -106 |
Matrix_345 | POC1 | Not available | Upstream | -117 |
| | | Upstream | -116 |
Matrix_356 | PRR5 | Not available | Upstream | -207 |
| | | Upstream | -120 |
| | | Upstream | -116 |
| | | Upstream | -109 |
Matrix_365 | AT1G10120;AT1G25330;CIB5;AT1G68920;AT3G23690;CIB1 | Not available | Upstream | -105 |
Matrix_369 | AT2G18300 | Not available | Upstream | -108 |
| | | Upstream | -106 |
Matrix_389 | ILR3 | Not available | Upstream | -113 |
| | | Upstream | -106 |
Matrix_403 | BZR1 | Not available | Upstream | -115 |
Matrix_437 | MYC2 | Not available | Upstream | -105 |
Matrix_438 | AtbZIP63 | Not available | Upstream | -115 |
Matrix_443 | AGL15 | Not available | Upstream | -202 |
| | | Upstream | -115 |
Matrix_449 | BIM2 | Not available | Upstream | -113 |
| | | Upstream | -106 |
Matrix_456 | bZIP60 | Not available | Upstream | -365 |
Matrix_465 | MYC4 | Not available | Upstream | -113 |
| | | Upstream | -106 |
Matrix_476 | bHLH115;bHLH34 | Not available | Upstream | -105 |
Matrix_480 | BES1 | Not available | Upstream | -201 |
| | | Upstream | -114 |
| | | Upstream | -113 |
Matrix_488 | ABF1 | Not available | Upstream | -114 |
Matrix_53 | MYC3 | Not available | Upstream | -111 |
| | | Upstream | -108 |
Matrix_55 | PIF3 | Not available | Upstream | -201 |
| | | Upstream | -114 |
Matrix_60 | AT1G01260;AT5G57150 | Not available | Upstream | -199 |
| | | Upstream | -112 |
Matrix_64 | PIF5 | Not available | Upstream | -112 |
Matrix_65 | POC1;PIL1 | Not available | Upstream | -199 |
| | | Upstream | -112 |
| | | Upstream | -111 |
Matrix_7 | PIF4 | Not available | Upstream | -113 |
| | | Upstream | -111 |
| | | Upstream | -106 |
Matrix_77 | PRR5 | Not available | Upstream | -115 |
| | | Upstream | -114 |
| | | Upstream | -108 |
Matrix_80 | BIM1 | Not available | Upstream | -112 |
| | | Upstream | -107 |
| | | Upstream | -105 |
Matrix_90 | BEE1;BEE3;AT3G07340;AT5G48560;AT5G50915 | Not available | Upstream | -105 |
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 | -63 |
Motif_139 | RHERPATEXPA7 | Right part of RHEs (Root Hair-specific cis-Elements) conserved among the Arabidopsis thaliana A7 (AtEXPA7) orthologous (and paralogous) genes from diverse angiosperm species with different hair distribution patterns | Upstream | -105 |
| | | Upstream | -103 |
Motif_150 | RBCSCONSENSUS | rbcS general consensus sequence; AATCCAA or AATCCAAC | Upstream | -184 |
| | | Upstream | -164 |
Motif_174 | SREATMSD | sugar-repressive element (SRE) found in 272 of the 1592 down-regulated genes after main stem decapitation in Arabidopsis | Upstream | -270 |
| | | Upstream | -258 |
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 | -198 |
| | | Upstream | -111 |
| | | Upstream | -104 |
Motif_193 | GLK1 | GLK transcription factors coordinate expression of the photosynthetic apparatus in Arabidopsis | Upstream | -181 |
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 | -198 |
| | | Upstream | -111 |
| | | Upstream | -104 |
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 | -112 |
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 | -199 |
| | | Upstream | -198 |
| | | Upstream | -112 |
| | | Upstream | -111 |
| | | Upstream | -105 |
| | | Upstream | -104 |
Motif_22 | RYREPEATLEGUMINBOX | RY repeat (CATGCAY) or legumin box found in seed-storage protein genes in legume such as soybean | Upstream | -84 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -200 |
| | | Upstream | -111 |
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 | -198 |
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 | -91 |
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 | -111 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -219 |
| | | Upstream | -198 |
| | | Upstream | -111 |
| | | Upstream | -104 |
Motif_342 | POLASIG1 | PolyA signal; poly A signal found in legA gene of pea, rice alpha-amylase; -10 to -30 in the case of animal genes. Near upstream elements (NUE) in Arabidopsis | Downstream | 2777 |
Motif_357 | NTBBF1ARROLB | NtBBF1(Dof protein from tobacco) binding site in Agrobacterium rhizogenes rolB gene; Found in regulatory domain B (-341 to -306); Required for tissue-specific expression and auxin induction | Downstream | 2775 |
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 | -140 |
Motif_400 | ABREAZMRAB28 | ABA-responsive element (ABRE A) found at -148 to -139 in maize rab28; Maize rab28 is ABA-inducible in embryos and vegetative tissues | Upstream | -113 |
Motif_419 | MYB4 binding site motif | Not available | Upstream | -91 |
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 | -226 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -199 |
| | | Upstream | -112 |
| | | Upstream | -111 |
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 | -112 |
Motif_48 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -221 |
| | | Upstream | -196 |
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 | -187 |
Motif_51 | MYB46 | Identification of a cis-acting regulatory motif recognized by MYB46, a master transcriptional regulator of secondary wall biosynthesis | Upstream | -92 |
Motif_511 | RYREPEATGMGY2 | RY repeat motif (CATGCAT); Present in the 5' region of the soybean glycinin gene (Gy2) | Upstream | -84 |
Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -110 |
Motif_580 | L1BOXATPDF1 | L1 box found in promoter of Arabidopsis thaliana PROTODERMAL FACTOR1 (PDF1) gene; Located between -134 and -127; Involved in L1 layer-specific expression; L1-specific homeodomain protein ATML can bind to the L1 box; Y=C/T; A cotton fiber gene, RD22-like 1 (RDL1), contains a homeodomain binding L1 box and a MYB binding motif ; HDZip IV; Identification of a cis-regulatory element for L1 layer-specific gene expression, which is targeted by an L1-specific homeodomain protein | Downstream | 2732 |
Motif_606 | NAPINMOTIFBN | Sequence found in 5' upstream region (-6, -95, -188) of napin (2S albumin) gene in Brassica napus; Interact with a protein present in crude nuclear extracts from developing B. napus seeds | Upstream | -158 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Upstream | -141 |
| | | Upstream | -88 |
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 | -110 |
Motif_628 | TATCCAOSAMY | TATCCA element found in alpha-amylase promoters of rice at positions ca.90 to 150bp upstream of the transcription start sites; Binding sites of OsMYBS1, OsMYBS2 and OsMYBS3 which mediate sugar and hormone regulation of alpha-amylase gene expression; See also AMYBOX2 | Upstream | -257 |
Motif_638 | ABRE binding site motif | Not available | Upstream | -111 |
Motif_640 | RYREPEATBNNAPA | RY repeat found in RY/G box (the complex containing the two RY repeats and the G-box) of napA gene in Brassica napus; Found between -78 and -50; Required for seed specific expression;dist B ABRE mediated transactivation by ABI3 adn ABI3-dependent response to ABA; a tetramer of the composite RY/G complex mediated only ABA-independent transactivation by ABI3; B2 domain of ABI3 is necessary for ABA-independent and ABA-dependent activation through the dist B ABRE | Upstream | -84 |
Motif_641 | LRENPCABE | LRE; A positive light regulatory element in tobacco CAB (cab-E) gene; Located at -241 | Upstream | -110 |
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 | -365 |
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 | -269 |
| | | Upstream | -259 |
| | | Upstream | -188 |
Motif_666 | MYB binding site promoter | A flower-specific Myb protein activates transcription of phenylpropanoid biosynthetic genes | Upstream | -92 |