Matrix_101 | ERF5 | Not available | Upstream | -274 |
| | | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_106 | AT5G47390 | Not available | Upstream | -263 |
Matrix_110 | ATABI4;AT3G57600 | Not available | Upstream | -292 |
| | | Upstream | -293 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_119 | RRTF1 | Not available | Upstream | -293 |
| | | Upstream | -294 |
Matrix_126 | RBE | Not available | Upstream | -272 |
Matrix_138 | RRTF1 | Not available | Upstream | -293 |
| | | Upstream | -294 |
Matrix_143 | GATA14;GATA6;GATA5 | Not available | Upstream | -445 |
Matrix_144 | AT5G08330;AT5G23280 | Not available | Upstream | -474 |
| | | Upstream | -475 |
| | | Upstream | -476 |
Matrix_146 | ORA47 | Not available | Upstream | -294 |
| | | Upstream | -295 |
Matrix_147 | ERF3;AT1G80580 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_151 | ASIL1 | Not available | Upstream | -278 |
| | | Upstream | -279 |
Matrix_155 | RAP2.6;ERF110;ABR1 | Not available | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -295 |
| | | Upstream | -296 |
Matrix_169 | E2F1 | Not available | Upstream | -295 |
Matrix_171 | LBD3;LBD4 | Not available | Upstream | -257 |
| | | Upstream | -258 |
Matrix_179 | AtMYB84;MYB36;MYB68;O49746_ARATH | Not available | Upstream | -465 |
Matrix_183 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -297 |
| | | Upstream | -298 |
Matrix_186 | FHY3 | Not available | Upstream | -296 |
| | | Upstream | -297 |
Matrix_190 | ATERF1 | Not available | Upstream | -274 |
| | | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -294 |
| | | Upstream | -295 |
| | | Upstream | -296 |
Matrix_196 | TCP20;AT5G41030 | Not available | Upstream | -472 |
| | | Upstream | -473 |
Matrix_203 | GATA9;GATA12 | Not available | Upstream | -444 |
Matrix_216 | TCP16 | Not available | Upstream | -474 |
| | | Upstream | -475 |
Matrix_224 | ERF1 | Not available | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -293 |
| | | Upstream | -294 |
Matrix_232 | TCP23 | Not available | Upstream | -473 |
| | | Upstream | -474 |
Matrix_234 | RAP2.3 | Not available | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_243 | RAP2.12;RAP2.2 | Not available | Upstream | -259 |
| | | Upstream | -260 |
| | | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -295 |
| | | Upstream | -296 |
Matrix_246 | ARR10 | Molecular structure of the GARP family of plant Myb-related DNA binding motifs of the Arabidopsis response regulators | Upstream | -442 |
Matrix_252 | RAP2.6 | Not available | Upstream | -274 |
| | | Upstream | -275 |
| | | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_261 | ATERF-1 | Not available | Upstream | -258 |
| | | Upstream | -259 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_266 | TCP16 | Determinants of the DNA binding specificity of class I and class II TCP transcription factors | Upstream | -474 |
| | | Upstream | -475 |
Matrix_271 | AT3G16350 | Not available | Upstream | -263 |
Matrix_272 | DEAR4 | Not available | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_280 | TCP24;TCP1;BRC2;ATTCP18 | Not available | Upstream | -474 |
Matrix_287 | ERF2 | Not available | Upstream | -274 |
| | | Upstream | -275 |
| | | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_288 | RAP2.3 | Not available | Upstream | -293 |
| | | Upstream | -294 |
Matrix_295 | ERF1 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_297 | TCP15 | Not available | Upstream | -473 |
| | | Upstream | -474 |
Matrix_313 | ATMYB65;MYB33 | Not available | Upstream | -451 |
Matrix_321 | HRD | Not available | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_326 | AT5G07310;Rap2.6L;AT5G61890 | Not available | Upstream | -257 |
| | | Upstream | -258 |
| | | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -293 |
| | | Upstream | -294 |
Matrix_334 | AT3G23230 | Not available | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -295 |
| | | Upstream | -296 |
Matrix_336 | AT5G08520 | Not available | Upstream | -264 |
Matrix_343 | AT2G33710 | Not available | Upstream | -274 |
| | | Upstream | -275 |
| | | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_344 | ATERF15;AT4G18450 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_348 | AT5G51910 | Not available | Upstream | -474 |
| | | Upstream | -475 |
Matrix_355 | ERF10;ERF11 | Not available | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -293 |
| | | Upstream | -294 |
Matrix_360 | ORA59 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_363 | RAP2.3 | Not available | Upstream | -293 |
| | | Upstream | -294 |
Matrix_374 | AT5G07580;AT5G61590 | Not available | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_377 | AT1G75490;DREB2C;AT2G40350;AT5G18450 | Not available | Upstream | -258 |
| | | Upstream | -259 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_378 | ATERF1 | Not available | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_380 | ATMYR1 | Not available | Upstream | -254 |
| | | Upstream | -255 |
Matrix_395 | AT1G19210;ORA47;AT4G31060;AT5G21960 | Not available | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
Matrix_396 | AP3 | Not available | Upstream | -421 |
Matrix_405 | DREB2C | Not available | Upstream | -273 |
| | | Upstream | -274 |
| | | Upstream | -276 |
| | | Upstream | -277 |
Matrix_406 | ATERF-7 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -292 |
| | | Upstream | -293 |
Matrix_409 | DEAR3 | Not available | Upstream | -257 |
| | | Upstream | -258 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -293 |
| | | Upstream | -294 |
Matrix_414 | AGL15 | Not available | Upstream | -107 |
| | | Upstream | -235 |
Matrix_416 | ASL5 | Not available | Upstream | -255 |
Matrix_42 | AT2G45680 | Not available | Upstream | -474 |
| | | Upstream | -475 |
Matrix_426 | CRF1;CRF2 | Not available | Upstream | -259 |
| | | Upstream | -260 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -295 |
| | | Upstream | -296 |
Matrix_433 | ATERF1 | Not available | Upstream | -278 |
| | | Upstream | -279 |
Matrix_438 | AtbZIP63 | Not available | Upstream | -290 |
Matrix_448 | ATERF6 | Not available | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -293 |
| | | Upstream | -294 |
Matrix_45 | DRN | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_451 | STY1 | Not available | Upstream | -480 |
Matrix_454 | AT1G77200;ATERF38;AT4G16750;AT5G52020 | Not available | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -293 |
| | | Upstream | -294 |
Matrix_462 | ATERF-8 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -292 |
| | | Upstream | -293 |
Matrix_473 | RRTF1 | Not available | Upstream | -277 |
| | | Upstream | -278 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_475 | AT5G64220 | Not available | Upstream | -296 |
| | | Upstream | -297 |
Matrix_48 | PI | Not available | Upstream | -462 |
Matrix_484 | ATERF13 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_488 | ABF1 | Not available | Upstream | -254 |
Matrix_49 | FHY3/FAR1 | Not available | Upstream | -295 |
Matrix_490 | AtMYB77;ATMYB44 | Not available | Upstream | -453 |
Matrix_493 | AT1G22985;AT1G71130 | Not available | Upstream | -258 |
| | | Upstream | -259 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_5 | AT5G51190;ERF104 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_50 | ATERF14;AT5G43410 | Not available | Upstream | -275 |
| | | Upstream | -276 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -293 |
| | | Upstream | -294 |
Matrix_506 | DRNL;ATERF-4 | Not available | Upstream | -259 |
| | | Upstream | -260 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -295 |
| | | Upstream | -296 |
Matrix_507 | TCP3 | Not available | Upstream | -473 |
| | | Upstream | -474 |
Matrix_517 | ERF12 | Not available | Upstream | -276 |
| | | Upstream | -277 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_53 | MYC3 | Not available | Upstream | -296 |
Matrix_57 | WIN1;SHN3;SHN2 | Not available | Upstream | -257 |
| | | Upstream | -258 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -293 |
| | | Upstream | -294 |
Matrix_59 | AT4G00238;AT4G00250 | Not available | Upstream | -278 |
| | | Upstream | -279 |
Matrix_77 | PRR5 | Not available | Upstream | -296 |
| | | Upstream | -297 |
Matrix_86 | CRF5;CRF6;CRF4 | Not available | Upstream | -259 |
| | | Upstream | -260 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -281 |
| | | Upstream | -295 |
| | | Upstream | -296 |
Matrix_87 | AT1G19000 | Not available | Upstream | -262 |
| | | Upstream | -263 |
Matrix_91 | CRF3 | Not available | Upstream | -258 |
| | | Upstream | -259 |
| | | Upstream | -278 |
| | | Upstream | -279 |
| | | Upstream | -280 |
| | | Upstream | -294 |
| | | Upstream | -295 |
Matrix_93 | YAB5 | Not available | Upstream | -1525 |
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 | -371 |
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 | -140 |
| | | Upstream | -661 |
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 | -455 |
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 | Upstream | -264 |
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 | -299 |
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 | -455 |
Motif_243 | TELOBOXATEEF1AA1 | telo-box (telomere motif) found in the Arabidopsis (A.t.) eEF1AA1 gene promoter; Conserved in all known plant eEF1A gene promoters; Found in the 5' region of numerous genes encoding components of the translational apparatus; Required for the activation of expression in root primordia; Acts co-operatively with tef-box; Binding site of AtPur alpha-1; Plant interstitial telomere mitifs participate in the control of gene expression in root meristems | Upstream | -422 |
Motif_288 | NONAMERMOTIFTAH3H4 | Nonamer motif found in promoter of wheat histone genes H3 and H4 | Upstream | -456 |
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 | -277 |
| | | Upstream | -295 |
Motif_317 | GAREAT | GARE (GA-responsive element); Occurrence of GARE in GA-inducible, GA-responsible, and GA-nonresponsive genes found in Arabidopsis seed germination was 20, 18, and 12%, respectively | Upstream | -123 |
Motif_318 | CGCGBOXAT | CGCG box recognized by AtSR1-6 (Arabidopsis thaliana signal-responsive genes); Multiple CGCG elements are found in promoters of many genes; Ca2+/calmodulin binds to all AtSRs | Upstream | -258 |
| | | Upstream | -299 |
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 | -665 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Upstream | -455 |
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 | -138 |
| | | Upstream | -664 |
Motif_358 | UP2ATMSD | Up2 motif found in 193 of the 1184 up-regulated genes after main stem decapitation in Arabidopsis | Upstream | -422 |
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 | Upstream | -451 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Upstream | -1577 |
| | | Upstream | -1578 |
| | | Upstream | -1579 |
| | | Upstream | -1580 |
| | | Upstream | -1581 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Upstream | -288 |
Motif_65 | BS1EGCCR | BS1 (binding site 1) found in E. gunnii Cinnamoyl-CoA reductase (CCR) gene promoter; nuclear protein binding site; Required for vascular expression | Upstream | -246 |
| | | Upstream | -439 |
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 | -50 |
| | | Upstream | -74 |
| | | Upstream | -75 |
| | | Upstream | -597 |
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 | -50 |
| | | Upstream | -74 |
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 | -323 |
Motif_70 | CANBNNAPA | Core of (CA)n element in storage protein genes in Brasica napus; embryo- and endosperm-specific transcription of napin (storage protein) gene, napA; seed specificity; activator and repressor | Upstream | -427 |
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 | -372 |