Matrix_104 | PI | Not available | Upstream | -510 |
| | | Upstream | -511 |
Matrix_108 | PIF4 | Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -510 |
| | | Upstream | -511 |
Matrix_109 | GBF3 | Not available | Upstream | -510 |
| | | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
| | | Upstream | -959 |
Matrix_113 | ABI5 | Not available | Upstream | -510 |
| | | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
| | | Upstream | -959 |
Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -507 |
| | | Upstream | -508 |
| | | Upstream | -509 |
| | | Upstream | -954 |
| | | Upstream | -955 |
Matrix_120 | BEE2 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -510 |
| | | Upstream | -511 |
| | | Upstream | -512 |
Matrix_129 | ABF1 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_134 | ABF1 | Not available | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
Matrix_14 | ZCW32;AT5G62610 | Not available | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -512 |
| | | Upstream | -513 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -507 |
| | | Upstream | -508 |
| | | Upstream | -954 |
Matrix_156 | POC1 | Not available | Upstream | -510 |
| | | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
| | | Upstream | -959 |
Matrix_158 | AT1G03040;LRL1;UNE12;LRL2;LRL3 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -508 |
| | | Upstream | -509 |
| | | Upstream | -512 |
| | | Upstream | -513 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -508 |
| | | Upstream | -509 |
Matrix_200 | PIL5;AT4G28790;AT4G28800;AT4G28811;AT4G28815 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_214 | AP1 | Not available | Upstream | -509 |
| | | Upstream | -510 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -508 |
| | | Upstream | -509 |
| | | Upstream | -512 |
| | | Upstream | -513 |
Matrix_233 | MYC3 | Not available | Upstream | -512 |
| | | Upstream | -513 |
Matrix_24 | POC1 | Not available | Upstream | -507 |
| | | Upstream | -508 |
| | | Upstream | -954 |
Matrix_247 | PIF3 | Not available | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -958 |
Matrix_259 | AT1G50680;AT1G51120 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_264 | ATAREB1 | Not available | Upstream | -508 |
| | | Upstream | -509 |
| | | Upstream | -511 |
| | | Upstream | -512 |
Matrix_296 | GBF2 | Not available | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
| | | Upstream | -959 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
| | | Upstream | -959 |
Matrix_301 | PIL5 | Not available | Upstream | -506 |
| | | Upstream | -507 |
| | | Upstream | -512 |
| | | Upstream | -513 |
Matrix_323 | BIM3 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_330 | MYC2;TT8 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_331 | GBF1 | Not available | Upstream | -510 |
| | | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
| | | Upstream | -959 |
Matrix_332 | SPT;ALC | Not available | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
Matrix_338 | AP2 | Not available | Upstream | -508 |
| | | Upstream | -509 |
Matrix_339 | bHLH104 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_345 | POC1 | Not available | Upstream | -507 |
| | | Upstream | -508 |
| | | Upstream | -509 |
| | | Upstream | -954 |
| | | Upstream | -955 |
Matrix_356 | PRR5 | Not available | Upstream | -504 |
| | | Upstream | -505 |
| | | Upstream | -508 |
| | | Upstream | -509 |
Matrix_389 | ILR3 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_403 | BZR1 | Not available | Upstream | -509 |
| | | Upstream | -510 |
| | | Upstream | -956 |
Matrix_443 | AGL15 | Not available | Upstream | -509 |
| | | Upstream | -510 |
Matrix_449 | BIM2 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_453 | EIL3 | Not available | Upstream | -519 |
Matrix_465 | MYC4 | Not available | Upstream | -511 |
| | | Upstream | -512 |
Matrix_48 | PI | Not available | Upstream | -7 |
Matrix_488 | ABF1 | Not available | Upstream | -503 |
| | | Upstream | -504 |
| | | Upstream | -510 |
| | | Upstream | -511 |
| | | Upstream | -957 |
Matrix_55 | PIF3 | Not available | Upstream | -510 |
| | | Upstream | -511 |
Matrix_60 | AT1G01260;AT5G57150 | Not available | Upstream | -512 |
| | | Upstream | -513 |
Matrix_64 | PIF5 | Not available | Upstream | -512 |
| | | Upstream | -513 |
Matrix_65 | POC1;PIL1 | Not available | Upstream | -512 |
| | | Upstream | -513 |
Matrix_7 | PIF4 | Not available | Upstream | -511 |
| | | Upstream | -512 |
| | | Upstream | -513 |
| | | Upstream | -514 |
Matrix_77 | PRR5 | Not available | Upstream | -509 |
| | | Upstream | -510 |
| | | Upstream | -511 |
Matrix_80 | BIM1 | Not available | Upstream | -510 |
| | | Upstream | -512 |
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 | -562 |
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 | Upstream | -265 |
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 | -245 |
Motif_15 | AMYBOX2 | amylase box; amylase element; Conserved sequence found in 5'upstream region of alpha-amylase gene of rice, wheat, barley | Upstream | -496 |
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 | Downstream | 4056 |
Motif_174 | SREATMSD | sugar-repressive element (SRE) found in 272 of the 1592 down-regulated genes after main stem decapitation in Arabidopsis | Downstream | 4057 |
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 | -513 |
| | | Upstream | -1423 |
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 | -513 |
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 | -511 |
| | | Upstream | -512 |
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 | Downstream | 4058 |
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 | -512 |
| | | Upstream | -513 |
| | | Upstream | -1422 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -511 |
| | | Upstream | -513 |
| | | Upstream | -1421 |
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 | -511 |
| | | Upstream | -513 |
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 | -511 |
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 | -496 |
Motif_309 | GATA promoter motif | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | Upstream | -16 |
| | | Upstream | -263 |
Motif_332 | SV40COREENHAN | SV40 core enhancer; Similar sequences found in rbcS genes | Upstream | -482 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -513 |
| | | Upstream | -1423 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -512 |
| | | Upstream | -513 |
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 | -56 |
| | | Upstream | -530 |
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 | -512 |
Motif_530 | CPBCSPOR | The sequence critical for Cytokinin-enhanced Protein Binding in vitro, found in -490 to -340 of the promoter of the cucumber POR (NADPH-protochlorophyllide reductase) gene | Downstream | 4003 |
Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -511 |
| | | Upstream | -514 |
Motif_563 | PYRIMIDINEBOXOSRAMY1A | Pyrimidine box found in rice alpha-amylase (RAmy1A) gene; Gibberellin-respons cis-element of GARE and pyrimidine box are partially involved in sugar repression; Found in the promoter of barley alpha-amylase (Amy2/32b) gene which is induced in the aleurone layers in response to GA; BPBF protein binds specifically to this site | Upstream | -147 |
| | | Upstream | -303 |
| | | Upstream | -659 |
Motif_609 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Upstream | -144 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Upstream | -483 |
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 | -511 |
| | | Upstream | -514 |
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 | -497 |
Motif_638 | ABRE binding site motif | Not available | Upstream | -511 |
| | | Upstream | -513 |
Motif_641 | LRENPCABE | LRE; A positive light regulatory element in tobacco CAB (cab-E) gene; Located at -241 | Upstream | -510 |
| | | Upstream | -514 |
Motif_649 | 2SSEEDPROTBANAPA | Conserved in many storage-protein gene promoters; May be important for high activity of the napA promoter | Upstream | -1309 |
| | | Upstream | -1665 |
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 | -252 |
| | | Upstream | -331 |
Motif_672 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Upstream | -144 |
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 | -331 |
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 | Upstream | -483 |
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 | -515 |