Matrix_104 | PI | Not available | Upstream | -755 |
| | | Upstream | -756 |
| | | Upstream | -898 |
Matrix_108 | PIF4 | Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -1693 |
Matrix_109 | GBF3 | Not available | Upstream | -898 |
| | | Upstream | -1749 |
Matrix_113 | ABI5 | Not available | Upstream | -757 |
| | | Upstream | -758 |
| | | Upstream | -898 |
| | | Upstream | -900 |
Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -1747 |
Matrix_120 | BEE2 | Not available | Upstream | -899 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -756 |
| | | Upstream | -757 |
| | | Upstream | -898 |
| | | Upstream | -899 |
Matrix_128 | TGA2 | Not available | Upstream | -804 |
Matrix_129 | ABF1 | Not available | Upstream | -756 |
| | | Upstream | -757 |
| | | Upstream | -899 |
Matrix_134 | ABF1 | Not available | Upstream | -756 |
| | | Upstream | -757 |
| | | Upstream | -899 |
Matrix_14 | ZCW32;AT5G62610 | Not available | Upstream | -1694 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -757 |
| | | Upstream | -758 |
| | | Upstream | -900 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -805 |
| | | Upstream | -895 |
Matrix_156 | POC1 | Not available | Upstream | -898 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -757 |
| | | Upstream | -758 |
| | | Upstream | -896 |
| | | Upstream | -900 |
| | | Upstream | -1747 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -753 |
| | | Upstream | -754 |
| | | Upstream | -896 |
Matrix_196 | TCP20;AT5G41030 | Not available | Upstream | -920 |
Matrix_200 | PIL5;AT4G28790;AT4G28800;AT4G28811;AT4G28815 | Not available | Upstream | -899 |
Matrix_206 | CUC1;ANAC100 | Not available | Upstream | -804 |
Matrix_214 | AP1 | Not available | Upstream | -754 |
| | | Upstream | -755 |
| | | Upstream | -897 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -753 |
| | | Upstream | -754 |
| | | Upstream | -805 |
| | | Upstream | -806 |
| | | Upstream | -896 |
| | | Upstream | -1747 |
Matrix_24 | POC1 | Not available | Upstream | -805 |
| | | Upstream | -895 |
Matrix_247 | PIF3 | Not available | Upstream | -899 |
Matrix_25 | AP3 | Not available | Upstream | -1160 |
Matrix_251 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -753 |
Matrix_264 | ATAREB1 | Not available | Upstream | -753 |
| | | Upstream | -754 |
| | | Upstream | -756 |
| | | Upstream | -757 |
| | | Upstream | -896 |
| | | Upstream | -899 |
Matrix_269 | FHY3/FAR1 | Not available | Upstream | -41 |
| | | Upstream | -44 |
| | | Upstream | -47 |
Matrix_296 | GBF2 | Not available | Upstream | -1750 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -757 |
| | | Upstream | -758 |
| | | Upstream | -899 |
| | | Upstream | -900 |
| | | Upstream | -1750 |
Matrix_301 | PIL5 | Not available | Upstream | -334 |
| | | Upstream | -894 |
| | | Upstream | -900 |
Matrix_305 | PIF4 | Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -1748 |
Matrix_313 | ATMYB65;MYB33 | Not available | Upstream | -884 |
Matrix_323 | BIM3 | Not available | Upstream | -1694 |
Matrix_331 | GBF1 | Not available | Upstream | -757 |
| | | Upstream | -758 |
| | | Upstream | -898 |
| | | Upstream | -900 |
| | | Upstream | -1749 |
Matrix_332 | SPT;ALC | Not available | Upstream | -899 |
Matrix_338 | AP2 | Not available | Upstream | -753 |
| | | Upstream | -754 |
| | | Upstream | -896 |
Matrix_356 | PRR5 | Not available | Upstream | -749 |
| | | Upstream | -750 |
| | | Upstream | -892 |
| | | Upstream | -896 |
| | | Upstream | -1691 |
| | | Upstream | -1747 |
Matrix_365 | AT1G10120;AT1G25330;CIB5;AT1G68920;AT3G23690;CIB1 | Not available | Upstream | -1695 |
Matrix_369 | AT2G18300 | Not available | Upstream | -1694 |
Matrix_372 | ANAC81 | DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus | Intron | 1884 |
| | | Intron | 522 |
| | | Intron | 168 |
| | | Intron | 90 |
| | | Intron | 87 |
| | | Intron | 79 |
| | | Intron | 75 |
Matrix_373 | E2FE | Not available | Upstream | -1314 |
Matrix_389 | ILR3 | Not available | Upstream | -899 |
Matrix_403 | BZR1 | Not available | Upstream | -754 |
| | | Upstream | -755 |
| | | Upstream | -897 |
Matrix_438 | AtbZIP63 | Not available | Upstream | -1750 |
Matrix_443 | AGL15 | Not available | Upstream | -754 |
| | | Upstream | -755 |
| | | Upstream | -897 |
Matrix_45 | DRN | Not available | Upstream | -20 |
Matrix_466 | PRR5 | Not available | Upstream | -1684 |
Matrix_480 | BES1 | Not available | Upstream | -898 |
Matrix_488 | ABF1 | Not available | Upstream | -748 |
| | | Upstream | -749 |
| | | Upstream | -891 |
| | | Upstream | -1742 |
Matrix_53 | MYC3 | Not available | Upstream | -897 |
Matrix_55 | PIF3 | Not available | Upstream | -755 |
| | | Upstream | -756 |
| | | Upstream | -898 |
| | | Upstream | -1270 |
Matrix_56 | BZIP17;BZIP28;BZIP49 | Not available | Upstream | -1751 |
Matrix_64 | PIF5 | Not available | Upstream | -1272 |
Matrix_7 | PIF4 | Not available | Upstream | -899 |
Matrix_77 | PRR5 | Not available | Upstream | -755 |
| | | Upstream | -756 |
| | | Upstream | -898 |
| | | Upstream | -1002 |
Matrix_80 | BIM1 | Not available | Upstream | -1693 |
Motif_129 | GAGAGMGSA1 | GAGA element found in the promoter of the heme and chlorophyll synthesis gene Gsa1 in soybean; GAGA binding protein (GBP) binds to (GA)n/(CT)n DNA | Upstream | -164 |
Motif_145 | MYCATERD1 | MYC recognition sequence (from -466 to -461) necessary for expression of erd1 (early responsive to dehydration) in dehydrated Arabidopsis; NAC protein bound specifically to the CATGTG motif; NAC protein bound specifically to the CATGTG motif | Upstream | -322 |
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 | -758 |
| | | Upstream | -900 |
| | | Upstream | -1272 |
| | | Upstream | -1695 |
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 | -790 |
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 | -744 |
| | | Upstream | -748 |
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 | -758 |
| | | Upstream | -790 |
| | | Upstream | -810 |
Motif_195 | TATABOX4 | TATA box; TATA box found in the 5'upstream region of sweet potato sporamin A gene; TATA box found in beta-phaseolin promoter; sequence and spacing of TATA box elements are critical for accurate initiation | Upstream | -242 |
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 | -898 |
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 | -757 |
| | | Upstream | -758 |
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 | -790 |
Motif_235 | C8GCARGAT | Binding site of plant MADS-domain protein AGL15; CArG motif with a longer A/T-rich core;A variant of CArG motif, with a longer A/T-rich core; Binding site for AGL15 (AGAMOUS-like 15) | Upstream | -1282 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -756 |
| | | Upstream | -758 |
| | | Upstream | -898 |
| | | Upstream | -900 |
| | | Upstream | -1272 |
| | | Upstream | -1749 |
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 | -758 |
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 | -744 |
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 | -898 |
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 | -745 |
Motif_332 | SV40COREENHAN | SV40 core enhancer; Similar sequences found in rbcS genes | Upstream | -842 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Upstream | -790 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -334 |
| | | Upstream | -758 |
| | | Upstream | -900 |
| | | Upstream | -924 |
| | | Upstream | -1272 |
| | | Upstream | -1663 |
| | | Upstream | -1695 |
| | | Upstream | -1751 |
| | | Upstream | -1809 |
Motif_365 | ARF1 binding site motif | ARF (auxin response factor) binding site found in the promoters of primary/early auxin response genes of Arabidopsis thaliana; AuxRE;Binding site of Arabidopsis ARF1 (Auxin response factor1); Sequence found in NDE element in Soybean SAUR (Small Auxin-Up RNA) 15A gene promoter;Found in D1 or D4 element in Soybean GH3 promoter; This element was enriched in the 5'-flanking region of genes up-regulated by both IAA and BL;Dimerization and DNA binding of auxin response factors | Upstream | -1278 |
Motif_370 | TATABOX2 | TATA box; TATA box found in the 5'upstream region of pea legA gene; sporamin A of sweet potato; TATA box found in beta-phaseolin promoter; sequence and spacing of TATA box elements are critical for accurate initiation | Upstream | -240 |
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 | -1824 |
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 | -923 |
Motif_410 | ANAERO1CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1); Arbitrary named ANAERO1CONSENSUS by the PLACEdb curator | Upstream | -1048 |
| | | Upstream | -1498 |
Motif_419 | MYB4 binding site motif | Not available | Upstream | -744 |
| | | Upstream | -783 |
Motif_426 | MYB58;MYB63 | MYB58 and MYB63 are transcriptional activators of the lignin biosynthetic pathway during secondary cell wall formation in Arabidopsis | Upstream | -744 |
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 | -923 |
Motif_441 | GAGA8HVBKN3 | GA octodinucleotide repeat found in intron IV of the barley gene Bkn3; Binding site for GAGA-binding factor BBR | Upstream | -164 |
| | | Upstream | -166 |
Motif_447 | AtMYC2 BS in RD22;PIF4 | Binding site for MYC (rd22BP1) in Arabidopsis dehydration-resposive gene, rd22; MYC binding site in rd22 gene of Arabidopsis thaliana; ABA-induction; Located at ca. -200 of rd22 gene; Also MYB at ca. -141 of rd22 gene; See also MYBATRD22; Role of Arabidopsis MYC and MYB homologs in drought- and abscisic acid-regulated gene expression. Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Upstream | -322 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -757 |
| | | Upstream | -899 |
| | | Upstream | -1272 |
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 | -925 |
Motif_48 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -1811 |
Motif_484 | RAV1-B binding site motif | Binding consensus sequence of an Arabidopsis transcription factor, RAV1; RAV1 specifically binds to DNA with bipartite sequence motifs of RAV1-A (CAACA) and RAV1-B (CACCTG); RAV1 protein contain AP2-like and B3-like domains; The AP2-like and B3-like domains recognize the CAACA and CACCTG motifs, respectively; The expression level of RAV1 were relatively high in rosette leaves and roots; RAV1, a novel DNA-binding protein, binds to bipartite recognition sequence through two distinct DNA-binding domains uniquely found in higher plants | Upstream | -810 |
Motif_49 | TATAPVTRNALEU | TATA-like motif; A TATA-like sequence found in Phaseolus vulgaris tRNALeu gene promoter; Frequently observed upstream of plant tRNA genes; Found in maize glycolytic glyceraldehyde-3-phospate dehydrogenase 4 (GapC4) gene promoter; Binding site of TATA binding protein (TBP) | Upstream | -241 |
Motif_498 | SGBFGMGMAUX28 | bZIP proteins SGBF-1 and SGBF-2 binding site in soybean GmAux28 gene promoter | Upstream | -756 |
Motif_536 | TBOXATGAPB | Tbox found in the Arabidopsis thaliana GAPB gene promoter; Located between -94 and -89 (T1) and also between -84 and -79 (T2); Mutations in the Tbox resulted in reductions of light-activated gene transcription; GAPB encodes the B subunit of chloroplast glyceraldehyde-3-phosphate dehydrogenase(GADPH) of A.T.; Promoter analysis of the nuclear gene encoding the chloroplast glyceraldehyde-3-phosphate dehydrogenase B subunit of Arabidopsis thaliana | Upstream | -832 |
Motif_542 | ABI5;AtMYC2;HY5 | A basic helix-loop-helix transcription factor in Arabidopsis, MYC2, acts as a repressor of blue light-mediated photomorphogenic growth. Arabidopsis bZIP protein HY5 directly interacts with light-responsive promoters in mediating light control of gene expression. The homologous ABI5 and EEL transcription factors function antagonistically to fine-tune gene expression during late embryogenesis | Upstream | -898 |
Motif_549 | TBF1 | The HSF-like transcription factor TBF1 is a major molecular switch for plant growth-to-defense transition | Upstream | -41 |
| | | Upstream | -44 |
| | | Upstream | -47 |
| | | Upstream | -50 |
Motif_552 | MRE1 | MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1 | Upstream | -837 |
Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -898 |
| | | Upstream | -1749 |
Motif_567 | T/GBOXATPIN2 | T/G-box found in tomato proteinase inhibitor II (pin2) and leucine aminopeptidase (LAP) genes; Involved in jasmonate (JA) induction of these genes; bHLH-Leu zipper JAMYC2 and JAMYC10 proteins specifically recognize this motif | Upstream | -1328 |
Motif_57 | ABREOSRAB21 | ABA responsive element (ABRE) of wheat Em and rice rab21 genes; Proposed consensus sequence for the repeated motif (Em1a and Em1b) of wheat Em gene | Upstream | -897 |
Motif_570 | POLASIG2 | PolyA signal; poly A signal found in rice alpha-amylase; -10 to -30 in the case of animal genes | Upstream | -1284 |
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 | -925 |
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 | -1754 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Upstream | -259 |
| | | Upstream | -400 |
| | | Upstream | -401 |
| | | Upstream | -402 |
| | | Upstream | -403 |
| | | Upstream | -404 |
| | | Upstream | -405 |
| | | Upstream | -406 |
| | | Upstream | -666 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Upstream | -1823 |
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 | -759 |
| | | Upstream | -898 |
| | | Upstream | -901 |
| | | Upstream | -1749 |
Motif_638 | ABRE binding site motif | Not available | Upstream | -898 |
Motif_641 | LRENPCABE | LRE; A positive light regulatory element in tobacco CAB (cab-E) gene; Located at -241 | Upstream | -1748 |
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 | -160 |
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 | -160 |
Motif_689 | ANAC092 | NAC Transcription Factor ORE1 and Senescence-Induced BIFUNCTIONAL NUCLEASE1 (BFN1) Constitute a Regulatory Cascade in Arabidopsis | Upstream | -838 |
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 | -164 |
| | | Upstream | -166 |
| | | Upstream | -168 |
| | | Upstream | -170 |
| | | Upstream | -172 |
| | | Upstream | -174 |
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 | -759 |
| | | Upstream | -901 |
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 | -1274 |