Matrix_104 | PI | Not available | Upstream | -685 |
Matrix_109 | GBF3 | Not available | Upstream | -685 |
| | | Upstream | -687 |
Matrix_113 | ABI5 | Not available | Upstream | -685 |
| | | Upstream | -687 |
Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -682 |
| | | Upstream | -683 |
Matrix_120 | BEE2 | Not available | Upstream | -686 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -685 |
| | | Upstream | -686 |
Matrix_127 | AtMYB15 | More than 80R2R3-MYB regulatory genes in the genome of Arabidopsis thaliana | Upstream | -649 |
Matrix_129 | ABF1 | Not available | Upstream | -686 |
Matrix_130 | TCP16 | Not available | Upstream | -645 |
| | | Upstream | -646 |
Matrix_134 | ABF1 | Not available | Upstream | -686 |
| | | Upstream | -687 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -687 |
Matrix_148 | WRKY60 | Not available | Downstream | 3793 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -682 |
| | | Upstream | -851 |
Matrix_151 | ASIL1 | Not available | Upstream | -538 |
Matrix_155 | RAP2.6;ERF110;ABR1 | Not available | Upstream | -538 |
| | | Upstream | -540 |
Matrix_156 | POC1 | Not available | Upstream | -685 |
| | | Upstream | -687 |
Matrix_176 | MYB98 | Not available | Upstream | -145 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -683 |
| | | Upstream | -687 |
| | | Upstream | -725 |
| | | Upstream | -726 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -683 |
Matrix_200 | PIL5;AT4G28790;AT4G28800;AT4G28811;AT4G28815 | Not available | Upstream | -686 |
Matrix_201 | AT1G74840 | Not available | Downstream | 3794 |
Matrix_214 | AP1 | Not available | Upstream | -684 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -683 |
| | | Upstream | -687 |
Matrix_237 | MYB55 | Not available | Upstream | -651 |
Matrix_24 | POC1 | Not available | Upstream | -682 |
| | | Upstream | -851 |
Matrix_247 | PIF3 | Not available | Upstream | -686 |
Matrix_259 | AT1G50680;AT1G51120 | Not available | Upstream | -686 |
Matrix_264 | ATAREB1 | Not available | Upstream | -683 |
| | | Upstream | -686 |
Matrix_269 | FHY3/FAR1 | Not available | Downstream | 3803 |
Matrix_278 | AtbZIP44 | Not available | Upstream | -727 |
Matrix_281 | TCP13 | Not available | Upstream | -645 |
Matrix_294 | MEE35 | Not available | Upstream | -645 |
Matrix_296 | GBF2 | Not available | Upstream | -686 |
| | | Upstream | -687 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -686 |
| | | Upstream | -687 |
Matrix_301 | PIL5 | Not available | Upstream | -681 |
| | | Upstream | -687 |
Matrix_331 | GBF1 | Not available | Upstream | -685 |
| | | Upstream | -687 |
Matrix_332 | SPT;ALC | Not available | Upstream | -686 |
| | | Upstream | -687 |
Matrix_338 | AP2 | Not available | Upstream | -683 |
Matrix_345 | POC1 | Not available | Upstream | -682 |
| | | Upstream | -683 |
Matrix_356 | PRR5 | Not available | Upstream | -679 |
| | | Upstream | -683 |
Matrix_389 | ILR3 | Not available | Upstream | -686 |
Matrix_399 | TGA1 | Not available | Upstream | -729 |
Matrix_403 | BZR1 | Not available | Upstream | -684 |
Matrix_406 | ATERF-7 | Not available | Upstream | -537 |
| | | Upstream | -539 |
Matrix_438 | AtbZIP63 | Not available | Upstream | -728 |
| | | Upstream | -729 |
Matrix_443 | AGL15 | Not available | Upstream | -684 |
Matrix_456 | bZIP60 | Not available | Upstream | -728 |
Matrix_457 | TGA2 | Not available | Upstream | -730 |
Matrix_488 | ABF1 | Not available | Upstream | -678 |
| | | Upstream | -685 |
Matrix_507 | TCP3 | Not available | Upstream | -644 |
Matrix_517 | ERF12 | Not available | Upstream | -539 |
Matrix_55 | PIF3 | Not available | Upstream | -685 |
Matrix_65 | POC1;PIL1 | Not available | Upstream | -687 |
Matrix_7 | PIF4 | Not available | Upstream | -686 |
| | | Upstream | -687 |
| | | Upstream | -688 |
Matrix_77 | PRR5 | Not available | Upstream | -684 |
| | | Upstream | -685 |
Matrix_82 | TCP17 | Not available | Upstream | -645 |
Matrix_94 | TCP5 | Not available | Upstream | -645 |
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 | 4568 |
| | | Upstream | -162 |
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 | 4665 |
| | | Downstream | 4634 |
Motif_131 | P1BS | PHR1-binding sequence found in the upstream regions of phosphate starvation responsive genes from several plant species; phr1 (phosphate starvation response 1) gene codes for PHR1 protein related to PSR1 gene in C. reinhardtii | Upstream | -693 |
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 | -625 |
Motif_16 | -300ELEMENT | Present upstream of the promoter from the B-hordein gene of barley and the alpha-gliadin, gamma-gliadin, and low molecular weight glutenin genes of wheat; See S000001 -300CORE; See S000002 -300MOTIF | Downstream | 3958 |
Motif_171 | TCP binding consensus | found enriched in peaks in chip-seq data for SEP3 | Downstream | 3795 |
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 | -687 |
| | | Upstream | -1009 |
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 | -147 |
| | | Upstream | -488 |
| | | Upstream | -633 |
| | | Upstream | -744 |
| | | Upstream | -988 |
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 | Upstream | -653 |
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 | -687 |
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 | -685 |
| | | Upstream | -686 |
Motif_216 | PYRIMIDINEBOXHVEPB1 | Pyrimidine box found in the barley EPB-1 (cysteine proteinase) gene promoter; Located between -120 to -113; Required for GA induction | Upstream | -351 |
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 | -686 |
| | | Upstream | -687 |
| | | Upstream | -1008 |
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 | -633 |
| | | Upstream | -652 |
| | | Upstream | -744 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -685 |
| | | Upstream | -687 |
| | | Upstream | -728 |
| | | Upstream | -757 |
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 | 4471 |
| | | Upstream | -653 |
Motif_258 | -10PEHVPSBD | -10 promoter element found in the barley (H.v.) chloroplast psbD gene promoter; Involved in the expression of the plastid gene psbD which encodes a photosystem II reaction center chlorophyll-binding protein that is activated by blue, white or UV-A light | Downstream | 4636 |
| | | Downstream | 4460 |
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 | -685 |
| | | Upstream | -687 |
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 | Upstream | -653 |
Motif_309 | GATA promoter motif | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | Upstream | -660 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Upstream | -147 |
| | | Upstream | -488 |
| | | Upstream | -633 |
| | | Upstream | -744 |
| | | Upstream | -988 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -687 |
| | | Upstream | -730 |
| | | Upstream | -757 |
| | | Upstream | -1009 |
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 | Upstream | -628 |
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 | Downstream | 4423 |
Motif_371 | DRE-like promoter motif | The Expression Profile Matrix of Arabidopsis Transcription Factor Genes Suggests Their Putative Functions in Response to Environmental Stresses | Downstream | 4659 |
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 | -115 |
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 | -756 |
Motif_419 | MYB4 binding site motif | Not available | Upstream | -83 |
| | | Upstream | -653 |
Motif_425 | ANAC013;ANAC016;ANAC017;ANAC053;ANAC078 | A membrane-bound NAC transcription factor is a regulator of mitochondrial retrograde regulation involved in oxidative stress responses in Arabidopsis thaliana | Upstream | -721 |
Motif_426 | MYB58;MYB63 | MYB58 and MYB63 are transcriptional activators of the lignin biosynthetic pathway during secondary cell wall formation in Arabidopsis | Upstream | -653 |
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 | -756 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -686 |
| | | Upstream | -687 |
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 | -731 |
| | | Upstream | -756 |
Motif_51 | MYB46 | Identification of a cis-acting regulatory motif recognized by MYB46, a master transcriptional regulator of secondary wall biosynthesis | Downstream | 4471 |
| | | Upstream | -653 |
Motif_549 | TBF1 | The HSF-like transcription factor TBF1 is a major molecular switch for plant growth-to-defense transition | Downstream | 3803 |
Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -685 |
| | | Upstream | -688 |
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 | Downstream | 3956 |
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 | -731 |
| | | Upstream | -756 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Upstream | -114 |
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 | -685 |
| | | Upstream | -688 |
| | | Upstream | -728 |
Motif_638 | ABRE binding site motif | Not available | Upstream | -685 |
| | | Upstream | -687 |
Motif_641 | LRENPCABE | LRE; A positive light regulatory element in tobacco CAB (cab-E) gene; Located at -241 | Upstream | -684 |
| | | Upstream | -688 |
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 | -559 |
| | | Upstream | -561 |
| | | Upstream | -577 |
| | | Upstream | -594 |
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 | -728 |
Motif_85 | SORLIP5AT | one of Sequences Over-Represented in Light-Induced Promoters (SORLIPs) in Arabidopsis; Computationally identified phyA-induced motifs; Over-represented in both light-induced cotyledon-specific and root-specific genes; Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray data | Upstream | -163 |
Motif_88 | MYB2AT | Binding site for ATMYB2, an Arabidopsis MYB homolog; ATMYB2 binds oligonucleotides that contained a consensus MYB recognition sequence (TAACTG), such as is in the SV40 enhancer and the maize bronze-1 promoter; ATMYB2 is involved in regulation of genes that are responsive to water stress in Arabidopsis | Upstream | -744 |
Motif_93 | RGATAOS | R-GATA (GATA motif binding factor) binding site; GATA motif is found at -143 to -135 of RTBV promoter; GATA motif is required for phloem-specific gene expression of Rice Tungro Bacilliform Virus (RTBV); See also RNFG1OS, RNFG2OS, and ABFOS | Upstream | -289 |
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 | Downstream | 3787 |