Matrix_101 | ERF5 | Not available | Upstream | -516 |
Matrix_104 | PI | Not available | Upstream | -817 |
Matrix_109 | GBF3 | Not available | Upstream | -817 |
Matrix_113 | ABI5 | Not available | Upstream | -817 |
Matrix_117 | ANT | Not available | Downstream | 2165 |
Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -819 |
Matrix_119 | RRTF1 | Not available | Upstream | -517 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -817 |
Matrix_124 | AtHB23;ATHB13;ATHB20;ATHB5 | Not available | Upstream | -486 |
Matrix_129 | ABF1 | Not available | Upstream | -816 |
Matrix_134 | ABF1 | Not available | Upstream | -815 |
Matrix_138 | RRTF1 | Not available | Upstream | -517 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -815 |
Matrix_146 | ORA47 | Not available | Upstream | -516 |
Matrix_147 | ERF3;AT1G80580 | Not available | Upstream | -516 |
Matrix_154 | AT1G22190;AT1G36060;AT1G64380;RAP2.4;AT2G20880;AT2G22200;AT4G13620;AT4G28140;AT4G39780;AT5G65130 | Not available | Upstream | -518 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -819 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -819 |
Matrix_209 | RAP2.6 | Not available | Upstream | -518 |
Matrix_214 | AP1 | Not available | Upstream | -818 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -819 |
Matrix_224 | ERF1 | Not available | Upstream | -517 |
Matrix_227 | AT1G64620 | Not available | Downstream | 2321 |
Matrix_234 | RAP2.3 | Not available | Upstream | -516 |
Matrix_250 | ADAP;AT1G79700;WRI1;ANT | Not available | Downstream | 2161 |
Matrix_251 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -817 |
Matrix_252 | RAP2.6 | Not available | Upstream | -516 |
Matrix_261 | ATERF-1 | Not available | Upstream | -516 |
Matrix_264 | ATAREB1 | Not available | Upstream | -819 |
Matrix_269 | FHY3/FAR1 | Not available | Upstream | -69 |
Matrix_270 | ANT | DNA binding properties of the Arabidopsis floral development protein AINTEGUMENTA | Downstream | 2164 |
Matrix_277 | RAP2.6 | Not available | Upstream | -517 |
Matrix_285 | DDF1 | Not available | Upstream | -518 |
Matrix_287 | ERF2 | Not available | Upstream | -516 |
Matrix_288 | RAP2.3 | Not available | Upstream | -517 |
Matrix_295 | ERF1 | Not available | Upstream | -516 |
Matrix_296 | GBF2 | Not available | Upstream | -816 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -816 |
Matrix_301 | PIL5 | Not available | Upstream | -821 |
Matrix_326 | AT5G07310;Rap2.6L;AT5G61890 | Not available | Upstream | -517 |
Matrix_331 | GBF1 | Not available | Upstream | -817 |
Matrix_334 | AT3G23230 | Not available | Upstream | -515 |
Matrix_338 | AP2 | Not available | Upstream | -819 |
Matrix_343 | AT2G33710 | Not available | Upstream | -516 |
Matrix_345 | POC1 | Not available | Upstream | -819 |
Matrix_355 | ERF10;ERF11 | Not available | Upstream | -517 |
Matrix_356 | PRR5 | Not available | Upstream | -819 |
Matrix_360 | ORA59 | Not available | Upstream | -516 |
Matrix_363 | RAP2.3 | Not available | Upstream | -517 |
Matrix_372 | ANAC81 | DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus | Downstream | 2049 |
Matrix_374 | AT5G07580;AT5G61590 | Not available | Upstream | -516 |
Matrix_377 | AT1G75490;DREB2C;AT2G40350;AT5G18450 | Not available | Upstream | -516 |
Matrix_378 | ATERF1 | Not available | Upstream | -516 |
Matrix_381 | ATHB9 | Not available | Upstream | -491 |
Matrix_403 | BZR1 | Not available | Upstream | -818 |
Matrix_406 | ATERF-7 | Not available | Upstream | -518 |
Matrix_409 | DEAR3 | Not available | Upstream | -517 |
Matrix_426 | CRF1;CRF2 | Not available | Upstream | -515 |
Matrix_443 | AGL15 | Not available | Upstream | -818 |
Matrix_45 | DRN | Not available | Upstream | -516 |
Matrix_459 | ATHB9;CNA;PHB;ATHB-8;REV | Not available | Upstream | -491 |
Matrix_462 | ATERF-8 | Not available | Upstream | -518 |
Matrix_468 | ATHB9 | The Arabidopsis Athb-8, -9 and -14 genes are members of a small gene family coding for highly related HD-ZIP proteins | Upstream | -491 |
Matrix_473 | RRTF1 | Not available | Upstream | -516 |
Matrix_484 | ATERF13 | Not available | Upstream | -516 |
Matrix_488 | ABF1 | Not available | Upstream | -817 |
Matrix_493 | AT1G22985;AT1G71130 | Not available | Upstream | -516 |
Matrix_50 | ATERF14;AT5G43410 | Not available | Upstream | -517 |
Matrix_506 | DRNL;ATERF-4 | Not available | Upstream | -515 |
Matrix_517 | ERF12 | Not available | Upstream | -516 |
Matrix_53 | MYC3 | Not available | Upstream | -818 |
Matrix_55 | PIF3 | Not available | Upstream | -817 |
Matrix_57 | WIN1;SHN3;SHN2 | Not available | Upstream | -517 |
Matrix_60 | AT1G01260;AT5G57150 | Not available | Upstream | -815 |
Matrix_65 | POC1;PIL1 | Not available | Upstream | -814 |
Matrix_7 | PIF4 | Not available | Upstream | -816 |
Matrix_77 | PRR5 | Not available | Upstream | -818 |
Matrix_80 | BIM1 | Not available | Upstream | -817 |
Matrix_86 | CRF5;CRF6;CRF4 | Not available | Upstream | -515 |
Matrix_91 | CRF3 | Not available | Upstream | -516 |
Motif_1 | GT1CORE | Critical for GT-1 binding to box II of rbcS; Transcriptional activation by Arabidopsis GT-1 may be through interaction with TFIIA-TBP-TATA complex | Downstream | 2386 |
Motif_104 | CAREOSREP1 | CAREs (CAACTC regulatory elements) found in the promoter region of a cystein proteinase (REP-1) gene in rice | Downstream | 2311 |
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 | Downstream | 2686 |
Motif_125 | BOXIINTPATPB | Box II found in the tobacco plastid atpB gene promoter; Conserved in several NCII (nonconsensus type II) promoters of plastid genes; Important for the activity of this NCII promoter | Downstream | 2394 |
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 | 2399 |
Motif_15 | AMYBOX2 | amylase box; amylase element; Conserved sequence found in 5'upstream region of alpha-amylase gene of rice, wheat, barley | Upstream | -56 |
Motif_155 | NODCON1GM | One of two putative nodulin consensus sequences; See also NODCON2GM; One of the consensus sequence motifs of organ-specific elements (OSE) characteristic of the promoters activated in infected cells of root nodules | Upstream | -898 |
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 | -814 |
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 | -525 |
| | | Downstream | 2339 |
Motif_192 | BOXLCOREDCPAL | Consensus of the putative core sequences of box-L-like sequences in carrot; PAL1 promoter region; DCMYB1 bound to these sequences in vitro | Downstream | 2301 |
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 | -814 |
| | | Upstream | -525 |
| | | Downstream | 2165 |
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 | -815 |
| | | Upstream | -814 |
Motif_22 | RYREPEATLEGUMINBOX | RY repeat (CATGCAY) or legumin box found in seed-storage protein genes in legume such as soybean | Downstream | 2647 |
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 | -525 |
| | | Downstream | 2339 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -816 |
| | | Upstream | -814 |
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 | -815 |
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 | 2301 |
| | | Downstream | 2382 |
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 | -787 |
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 | Downstream | 2301 |
Motif_307 | TATCCAYMOTIFOSRAMY3D | TATCCAY motif found in rice RAmy3D alpha-amylase gene promoter; a GATA motif as its antisense sequence; TATCCAY motif and G motif are responsible for sugar repression | Upstream | -56 |
Motif_309 | GATA promoter motif | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | Upstream | -49 |
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 | -515 |
| | | Downstream | 2160 |
Motif_317 | GAREAT | GARE (GA-responsive element); Occurrence of GARE in GA-inducible, GA-responsible, and GA-nonresponsive genes found in Arabidopsis seed germination was 20, 18, and 12%, respectively | Downstream | 2215 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Upstream | -525 |
| | | Downstream | 2339 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -814 |
Motif_348 | WBBOXPCWRKY1 | WB box; WRKY proteins bind specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box; Found in amylase gene in sweet potato, alpha-Amy2 genes in wheat, barley, and wild oat, PR1 gene in parsley, and a transcription factor gene in Arabidopsis | Upstream | -787 |
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 | 2342 |
| | | Downstream | 2384 |
Motif_419 | MYB4 binding site motif | Not available | Downstream | 2301 |
| | | Downstream | 2382 |
Motif_426 | MYB58;MYB63 | MYB58 and MYB63 are transcriptional activators of the lignin biosynthetic pathway during secondary cell wall formation in Arabidopsis | Downstream | 2301 |
Motif_43 | CCA1 binding site motif | CCA1 binding site; CCA1 protein (myb-related transcription factor) interact with two imperfect repeats of AAMAATCT in Lhcb1*3 gene of Arabidopsis thaliana; Related to regulation by phytochrome;A myb-related transcription factor is involved in the phytochrome regulation of an Arabidopsis Lhcb gene | Upstream | -902 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -814 |
Motif_450 | E2FCONSENSUS | E2F consensus sequence of all different E2F-DP-binding motifs that were experimentally verified in plants | Downstream | 2326 |
| | | Downstream | 2346 |
Motif_498 | SGBFGMGMAUX28 | bZIP proteins SGBF-1 and SGBF-2 binding site in soybean GmAux28 gene promoter | Upstream | -816 |
Motif_51 | MYB46 | Identification of a cis-acting regulatory motif recognized by MYB46, a master transcriptional regulator of secondary wall biosynthesis | Downstream | 2301 |
Motif_511 | RYREPEATGMGY2 | RY repeat motif (CATGCAT); Present in the 5' region of the soybean glycinin gene (Gy2) | Downstream | 2647 |
Motif_517 | LEAFYATAG | Target sequence of LEAFY in the intron of AGAMOUS gene in Arabidopsis | Upstream | -826 |
Motif_520 | AMYBOX1 | amylase box; Conserved sequence found in 5'-upstream region of alpha-amylase gene of rice, wheat, barley | Downstream | 2215 |
Motif_527 | LFY | Structural basis for LEAFY floral switch function and similarity with helix-turn-helix proteins | Upstream | -831 |
Motif_549 | TBF1 | The HSF-like transcription factor TBF1 is a major molecular switch for plant growth-to-defense transition | Upstream | -69 |
Motif_552 | MRE1 | MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1 | Upstream | -530 |
| | | Upstream | -23 |
Motif_609 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Downstream | 2215 |
Motif_614 | MYBGAHV | Central element of gibberellin (GA) response complex (GARC) in high-pI alpha-amylase gene in barley; Similar to c-myb and v-myb consensus binding site; GAmyb binds specifically to the TAACAAA box in vitro; GAmyb is the sole GA-regulated transcriptional factor required for transcriptional activation of the high-pI alpha-amylase; GARC consist of the pyrimidine, TAACAAA and TATCCAC boxes; GARE in RAmy1A gene; GARE and pyrimidine box in RAmy1A are partially involved in sugar repression | Downstream | 2215 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Upstream | -910 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Downstream | 2343 |
| | | Downstream | 2385 |
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 | -816 |
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 | -55 |
Motif_630 | WBOXNTCHN48 | W box identified in the region between -125 and -69 of a tobacco class I basic chitinase gene CHN48; NtWRKY1, NtWRKY2 and NtWRKY4 bound to W box; NtWRKYs possibly involved in elicitor-respsonsive transcription of defense genes in tobacco | Upstream | -196 |
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 | Downstream | 2647 |
Motif_649 | 2SSEEDPROTBANAPA | Conserved in many storage-protein gene promoters; May be important for high activity of the napA promoter | Downstream | 2380 |
Motif_65 | BS1EGCCR | BS1 (binding site 1) found in E. gunnii Cinnamoyl-CoA reductase (CCR) gene promoter; nuclear protein binding site; Required for vascular expression | Upstream | -862 |
Motif_653 | INTRONLOWER | 3' intron-exon splice junctions; Plant intron lower sequence; Consensus sequence for plant introns | Upstream | -802 |
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 | -856 |
| | | Upstream | -367 |
| | | Upstream | -50 |
| | | Downstream | 2254 |
| | | Downstream | 2325 |
| | | Downstream | 2334 |
| | | Downstream | 2367 |
Motif_666 | MYB binding site promoter | A flower-specific Myb protein activates transcription of phenylpropanoid biosynthetic genes | Downstream | 2301 |
| | | Downstream | 2382 |
Motif_672 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Downstream | 2215 |
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 | -367 |
| | | Downstream | 2254 |
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 | -773 |
| | | Upstream | -771 |
| | | Upstream | -769 |
Motif_70 | CANBNNAPA | Core of (CA)n element in storage protein genes in Brasica napus; embryo- and endosperm-specific transcription of napin (storage protein) gene, napA; seed specificity; activator and repressor | Downstream | 2380 |
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 | -816 |
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 | -360 |