Matrix_108 | PIF4 | Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses | Intron | 431 |
Matrix_113 | ABI5 | Not available | Intron | 431 |
Matrix_119 | RRTF1 | Not available | Upstream | -1036 |
| | | Upstream | -1037 |
Matrix_138 | RRTF1 | Not available | Upstream | -1036 |
| | | Upstream | -1037 |
Matrix_146 | ORA47 | Not available | Upstream | -145 |
Matrix_147 | ERF3;AT1G80580 | Not available | Upstream | -260 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Intron | 434 |
Matrix_176 | MYB98 | Not available | Upstream | -1045 |
Matrix_183 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Intron | 1803 |
Matrix_196 | TCP20;AT5G41030 | Not available | Intron | 624 |
| | | Intron | 623 |
Matrix_232 | TCP23 | Not available | Intron | 627 |
| | | Intron | 624 |
Matrix_234 | RAP2.3 | Not available | Upstream | -1037 |
| | | Upstream | -1038 |
Matrix_25 | AP3 | Not available | Upstream | -883 |
Matrix_252 | RAP2.6 | Not available | Upstream | -145 |
Matrix_277 | RAP2.6 | Not available | Upstream | -1036 |
| | | Upstream | -1037 |
Matrix_297 | TCP15 | Not available | Intron | 627 |
| | | Intron | 625 |
| | | Intron | 624 |
Matrix_301 | PIL5 | Not available | Intron | 435 |
Matrix_323 | BIM3 | Not available | Intron | 430 |
Matrix_326 | AT5G07310;Rap2.6L;AT5G61890 | Not available | Upstream | -1036 |
| | | Upstream | -1037 |
Matrix_343 | AT2G33710 | Not available | Upstream | -1037 |
| | | Upstream | -1038 |
Matrix_344 | ATERF15;AT4G18450 | Not available | Upstream | -224 |
Matrix_348 | AT5G51910 | Not available | Intron | 625 |
Matrix_355 | ERF10;ERF11 | Not available | Upstream | -1036 |
| | | Upstream | -1037 |
Matrix_363 | RAP2.3 | Not available | Upstream | -1036 |
| | | Upstream | -1037 |
Matrix_365 | AT1G10120;AT1G25330;CIB5;AT1G68920;AT3G23690;CIB1 | Not available | Intron | 430 |
| | | Intron | 429 |
Matrix_369 | AT2G18300 | Not available | Intron | 1802 |
| | | Intron | 432 |
| | | Intron | 430 |
Matrix_372 | ANAC81 | DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus | Upstream | -17 |
Matrix_378 | ATERF1 | Not available | Upstream | -145 |
Matrix_406 | ATERF-7 | Not available | Upstream | -1035 |
| | | Upstream | -1036 |
Matrix_42 | AT2G45680 | Not available | Intron | 626 |
| | | Intron | 625 |
Matrix_426 | CRF1;CRF2 | Not available | Upstream | -1038 |
| | | Upstream | -1039 |
Matrix_45 | DRN | Not available | Upstream | -260 |
Matrix_462 | ATERF-8 | Not available | Upstream | -1035 |
| | | Upstream | -1036 |
Matrix_473 | RRTF1 | Not available | Upstream | -1037 |
| | | Upstream | -1038 |
Matrix_488 | ABF1 | Not available | Upstream | -862 |
Matrix_493 | AT1G22985;AT1G71130 | Not available | Upstream | -1037 |
| | | Upstream | -1038 |
Matrix_506 | DRNL;ATERF-4 | Not available | Upstream | -1038 |
| | | Upstream | -1039 |
Matrix_53 | MYC3 | Not available | Intron | 429 |
| | | Intron | 428 |
Matrix_57 | WIN1;SHN3;SHN2 | Not available | Upstream | -1036 |
| | | Upstream | -1037 |
Matrix_84 | AtGRF6 | Not available | Upstream | -1039 |
Matrix_91 | CRF3 | Not available | Upstream | -1037 |
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 | 7692 |
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 | 7703 |
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 | Intron | 430 |
| | | Intron | 428 |
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 | -854 |
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 | Intron | 429 |
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 | -1047 |
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 | Intron | 429 |
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 | -953 |
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 | Intron | 429 |
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 | -1047 |
Motif_256 | RHE_element | Functional Conservation of a Root Hair Cell-Specific cis-Element in Angiosperms with Different Root Hair Distribution Patterns | Intron | 428 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Upstream | -1047 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Intron | 429 |
Motif_371 | DRE-like promoter motif | The Expression Profile Matrix of Arabidopsis Transcription Factor Genes Suggests Their Putative Functions in Response to Environmental Stresses | Upstream | -260 |
| | | Upstream | -869 |
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 | 7694 |
Motif_404 | AACACOREOSGLUB1 | Core of AACA motifs found in rice glutelin genes, involved in controlling the endosperm-specific expression; AACA is also closely associated with the GCN4 motif in all rice glutelin genes and together have been shown to confer endosperm-specific enhancement to the truncated -90 CaMV 35S promoter | Downstream | 7589 |
Motif_419 | MYB4 binding site motif | Not available | Downstream | 7589 |
| | | Intron | 419 |
Motif_450 | E2FCONSENSUS | E2F consensus sequence of all different E2F-DP-binding motifs that were experimentally verified in plants | Upstream | -849 |
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 | -952 |
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 | 7580 |
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) | Downstream | 7561 |
Motif_603 | SITEIIATCYTC | Site II element found in the promoter regions of cytochrome genes (Cytc-1, Cytc-2) in Arabidopsis; Located between -147 and -156 from the translational starts sites;Overrepresented in the promoters of nuclear genes encoding components of the oxidative phosphorylation (OxPhos) machinery from both Arabidopsis and rice | Intron | 457 |
Motif_609 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Downstream | 7615 |
| | | Downstream | 7589 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Upstream | -412 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Downstream | 7693 |
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 | Downstream | 7517 |
Motif_667 | TATABOXOSPAL | Binding site for OsTBP2, found in the promoter of rice pal gene encoding phenylalanine ammonia-lyase; OsTFIIB stimulated the DNA binding and bending activities of OsTBP2 and synergistically enhanced OsTBP2-mediated transcription from the pal promoter | Intron | 441 |
Motif_672 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Downstream | 7615 |
| | | Downstream | 7589 |