Matrix_101 | ERF5 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_105 | SPL14 | Not available | Upstream | -369 |
| | | Upstream | -370 |
Matrix_119 | RRTF1 | Not available | Upstream | -404 |
Matrix_147 | ERF3;AT1G80580 | Not available | Upstream | -405 |
Matrix_155 | RAP2.6;ERF110;ABR1 | Not available | Upstream | -406 |
Matrix_181 | Dof5.7 | Not available | Upstream | -134 |
Matrix_196 | TCP20;AT5G41030 | Not available | Upstream | -434 |
Matrix_222 | AGL2 | DNA binding properties of two Arabidopsis MADS domain proteins: binding consensus and dimer formation | Intron | 426 |
Matrix_224 | ERF1 | Not available | Upstream | -404 |
| | | Upstream | -405 |
Matrix_232 | TCP23 | Not available | Upstream | -433 |
Matrix_243 | RAP2.12;RAP2.2 | Not available | Upstream | -406 |
| | | Upstream | -407 |
Matrix_261 | ATERF-1 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_269 | FHY3/FAR1 | Not available | Upstream | -222 |
Matrix_277 | RAP2.6 | Not available | Upstream | -404 |
| | | Upstream | -405 |
Matrix_287 | ERF2 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_288 | RAP2.3 | Not available | Upstream | -404 |
Matrix_295 | ERF1 | Not available | Upstream | -405 |
Matrix_297 | TCP15 | Not available | Upstream | -433 |
Matrix_321 | HRD | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_326 | AT5G07310;Rap2.6L;AT5G61890 | Not available | Upstream | -404 |
| | | Upstream | -405 |
Matrix_334 | AT3G23230 | Not available | Upstream | -406 |
| | | Upstream | -407 |
Matrix_343 | AT2G33710 | Not available | Upstream | -405 |
Matrix_344 | ATERF15;AT4G18450 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_348 | AT5G51910 | Not available | Upstream | -432 |
Matrix_355 | ERF10;ERF11 | Not available | Upstream | -404 |
| | | Upstream | -405 |
Matrix_360 | ORA59 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_363 | RAP2.3 | Not available | Upstream | -404 |
Matrix_372 | ANAC81 | DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus | Upstream | -748 |
Matrix_374 | AT5G07580;AT5G61590 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_377 | AT1G75490;DREB2C;AT2G40350;AT5G18450 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_405 | DREB2C | Not available | Upstream | -406 |
| | | Upstream | -407 |
Matrix_406 | ATERF-7 | Not available | Upstream | -403 |
| | | Upstream | -404 |
Matrix_42 | AT2G45680 | Not available | Upstream | -432 |
Matrix_426 | CRF1;CRF2 | Not available | Upstream | -406 |
| | | Upstream | -407 |
Matrix_454 | AT1G77200;ATERF38;AT4G16750;AT5G52020 | Not available | Upstream | -404 |
Matrix_462 | ATERF-8 | Not available | Upstream | -403 |
Matrix_48 | PI | Not available | Upstream | -779 |
Matrix_482 | AT2G25650;AT4G00270 | Not available | Upstream | -407 |
| | | Upstream | -408 |
Matrix_484 | ATERF13 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_493 | AT1G22985;AT1G71130 | Not available | Upstream | -405 |
| | | Upstream | -406 |
Matrix_50 | ATERF14;AT5G43410 | Not available | Upstream | -404 |
| | | Upstream | -405 |
Matrix_506 | DRNL;ATERF-4 | Not available | Upstream | -406 |
| | | Upstream | -407 |
Matrix_507 | TCP3 | Not available | Upstream | -433 |
Matrix_86 | CRF5;CRF6;CRF4 | Not available | Upstream | -406 |
| | | Upstream | -407 |
Matrix_91 | CRF3 | Not available | Upstream | -405 |
| | | Upstream | -406 |
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 | 1749 |
Motif_165 | AP3SV40 | AP-3 binding site consensus sequence in enhancer regions of SV40, MMTV, MLV, IL2 | Upstream | -46 |
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 | Upstream | -299 |
Motif_171 | TCP binding consensus | found enriched in peaks in chip-seq data for SEP3 | Downstream | 1798 |
Motif_181 | IBOXCORENT | I-box core motif in the CAMs (conserved DNA modular arrays) associated with light-responsive promoter regions | Upstream | -299 |
Motif_189 | CMSRE1IBSPOA | CMSRE-1 (Carbohydrate Metabolite Signal Responsive Element 1) found in the promoter of sweet potato sporamin A gene | Upstream | -375 |
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 | Downstream | 1796 |
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 | Downstream | 1872 |
| | | Downstream | 1871 |
| | | Upstream | -424 |
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 | Downstream | 2184 |
| | | Upstream | -328 |
Motif_223 | LTRE1HVBLT49 | LTRE-1 (low-temperature-responsive element) in barley (H.v.) blt4.9 gene promoter; A new LTRE; A previously known LTRE is CCGAC | Upstream | -516 |
Motif_26 | GRF7 | Arabidopsis GROWTH-REGULATING FACTOR7 Functions as a Transcriptional Repressor of Abscisic Acid- and Osmotic Stress-Responsive Genes, Including DREB2A | Downstream | 1787 |
Motif_279 | POLASIG3 | Plant polyA signal; Consensus sequence for plant polyadenylation signal | Upstream | -597 |
Motif_286 | SEBFCONSSTPR10A | Binding site of the potato silencing element binding factor (SEBF) gene found in promoter of pathogenesis-related gene (PR-10a); Located between -45 and -39; Similar to the auxin response element | Upstream | -129 |
Motif_309 | GATA promoter motif | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | Upstream | -298 |
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 | -104 |
| | | Upstream | -406 |
Motif_321 | TATABOX5 | TATA box; TATA box found in the 5'upstream region of pea (Pisum sativum) glutamine synthetase gene; a functional TATA element by in vivo analysis | Upstream | -596 |
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 | -603 |
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 | -349 |
Motif_353 | HEXAMERATH4 | hexamer motif of Arabidopsis thaliana histone H4 promoter;Identification of cis-elements regulating the expression of an Arabidopsis histone H4 gene | Upstream | -366 |
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 | -129 |
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 | Downstream | 1874 |
Motif_392 | PALBOXAPC | Box A; Consensus; One of three putative cis-acting elements (boxes P, A, and L) of phenylalanine ammonia-lyase (PAL; EC 4.3.1.5) genes in parsley (P.c.); None of these elements (boxes P, A, and L) alone, or the promoter region containing all of them together, conferred elicitor or light responsiveness. These elements appear to be necessary but not sufficient for elicitor- or light-mediated PAL gene activation; See also Box P, Box L | Upstream | -376 |
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 | Upstream | -1 |
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 | Downstream | 1796 |
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) | Downstream | 1873 |
| | | Upstream | -424 |
Motif_570 | POLASIG2 | PolyA signal; poly A signal found in rice alpha-amylase; -10 to -30 in the case of animal genes | Upstream | -414 |
| | | Upstream | -472 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Downstream | 1834 |