Matrix_10 | STY1 | Not available | Downstream | 6540 |
Matrix_119 | RRTF1 | Not available | Upstream | -618 |
| | | Upstream | -619 |
Matrix_130 | TCP16 | Not available | Intron | 4997 |
| | | Intron | 4315 |
Matrix_138 | RRTF1 | Not available | Upstream | -618 |
| | | Upstream | -619 |
Matrix_144 | AT5G08330;AT5G23280 | Not available | Intron | 4315 |
Matrix_216 | TCP16 | Not available | Intron | 4997 |
| | | Intron | 4315 |
Matrix_224 | ERF1 | Not available | Upstream | -618 |
Matrix_234 | RAP2.3 | Not available | Upstream | -619 |
Matrix_25 | AP3 | Not available | Upstream | -47 |
Matrix_261 | ATERF-1 | Not available | Upstream | -619 |
Matrix_266 | TCP16 | Determinants of the DNA binding specificity of class I and class II TCP transcription factors | Intron | 4997 |
| | | Intron | 4315 |
Matrix_277 | RAP2.6 | Not available | Upstream | -618 |
Matrix_281 | TCP13 | Not available | Intron | 4995 |
| | | Intron | 4313 |
Matrix_287 | ERF2 | Not available | Upstream | -619 |
Matrix_288 | RAP2.3 | Not available | Upstream | -618 |
Matrix_294 | MEE35 | Not available | Intron | 4995 |
| | | Intron | 4313 |
Matrix_295 | ERF1 | Not available | Upstream | -619 |
Matrix_32 | AHL25 | Not available | Intron | 5876 |
Matrix_326 | AT5G07310;Rap2.6L;AT5G61890 | Not available | Upstream | -618 |
Matrix_334 | AT3G23230 | Not available | Upstream | -620 |
Matrix_343 | AT2G33710 | Not available | Upstream | -619 |
Matrix_355 | ERF10;ERF11 | Not available | Upstream | -618 |
Matrix_360 | ORA59 | Not available | Upstream | -619 |
Matrix_363 | RAP2.3 | Not available | Upstream | -618 |
Matrix_374 | AT5G07580;AT5G61590 | Not available | Upstream | -619 |
Matrix_378 | ATERF1 | Not available | Upstream | -619 |
Matrix_406 | ATERF-7 | Not available | Upstream | -617 |
Matrix_42 | AT2G45680 | Not available | Intron | 4315 |
Matrix_426 | CRF1;CRF2 | Not available | Upstream | -620 |
Matrix_458 | MGP;AT1G14580;AtIDD7;AtIDD5;AtIDD4;AtIDD12;JKD;AT5G66730 | Not available | Intron | 523 |
Matrix_473 | RRTF1 | Not available | Upstream | -619 |
Matrix_48 | PI | Not available | Upstream | -266 |
| | | Upstream | -364 |
| | | Upstream | -365 |
Matrix_484 | ATERF13 | Not available | Upstream | -619 |
Matrix_489 | RAV1 | Not available | Upstream | -615 |
Matrix_493 | AT1G22985;AT1G71130 | Not available | Upstream | -619 |
Matrix_50 | ATERF14;AT5G43410 | Not available | Upstream | -618 |
Matrix_57 | WIN1;SHN3;SHN2 | Not available | Upstream | -615 |
Matrix_66 | AtLEC2 | Genes directly regulated by LEAFY COTYLEDON2 provide insight into the control of embryo maturation and somatic embryogenesis | Upstream | -587 |
Matrix_82 | TCP17 | Not available | Intron | 4995 |
| | | Intron | 4313 |
Matrix_86 | CRF5;CRF6;CRF4 | Not available | Upstream | -620 |
Matrix_91 | CRF3 | Not available | Upstream | -619 |
Motif_119 | ABI3 | Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | Upstream | -589 |
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 | -273 |
| | | Upstream | -275 |
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 | 5057 |
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 | Intron | 848 |
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 | Intron | 5066 |
| | | Upstream | -154 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -601 |
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 | Intron | 562 |
Motif_270 | ELRECOREPCRP1 | ElRE (Elicitor Responsive Element) core of parsley PR1 genes; consensus sequence of elements W1 and W2 of parsley PR1-1 and PR1-2 promoters; Box W1 and W2 are the binding site of WRKY1 and WRKY2, respectively; ERE; WA box; One of the W boxes found in the Parsley WRKY1 gene promoter; Required for elicitor responsiveness; WC box WB box and WC box constitute a palindrome; WRKY1 protein binding site; W-box found in thioredoxin h5 gene in Arabidopsis | Intron | 623 |
Motif_279 | POLASIG3 | Plant polyA signal; Consensus sequence for plant polyadenylation signal | Upstream | -206 |
Motif_309 | GATA promoter motif | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | Upstream | -331 |
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 | -620 |
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 | Intron | 798 |
Motif_320 | AGCBOXNPGLB | AGC box repeated twice in a 61 bp enhancer element in tobacco class I beta-1,3-glucanase (GLB) gene;GCC-box; Binding sequence of Arabidopsis AtERFs; AtERF1,2 and 5 functioned as activators of GCC box-dependent transcription; AtERF3 and 4 acted as repressors; AtERF proteins are stress signal-response factors; EREBP2 binding site; Conserved in most PR-protein genes; Rice MAPK (BWMK1) phosphorylates OS EREBP1, which enhance DNA-binding activity of the factor to the GCC box | Upstream | -620 |
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 | -205 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -603 |
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 | -780 |
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 | Intron | 5073 |
| | | Intron | 623 |
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 | -151 |
| | | Upstream | -985 |
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 | -314 |
Motif_395 | RHE_element | Functional Conservation of a Root Hair Cell-Specific cis-Element in Angiosperms with Different Root Hair Distribution Patterns | Intron | 5057 |
Motif_402 | AtTINY2 | Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana | Upstream | -618 |
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 | Intron | 799 |
| | | Upstream | -233 |
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 | Intron | 559 |
| | | Upstream | -232 |
| | | Upstream | -236 |
Motif_419 | MYB4 binding site motif | Not available | Intron | 799 |
| | | Intron | 562 |
| | | Upstream | -15 |
| | | Upstream | -233 |
| | | Upstream | -426 |
| | | Upstream | -492 |
| | | Upstream | -726 |
| | | Upstream | -967 |
Motif_422 | SP8BFIBSP8BIB | One of SPBF binding site (SP8b); Found at -330, -220, and -200 of gSPO-B1 (sporamin) gene, and also at -80 of gB-Amy (beta-amylase) gene; SP8BF recognizes both SP8a and SP8b sequences; See also SP8BFIBSP8AIB; SP8BF activity is also found in tobacco; SP8b found in the 5' upstream region of three differnt genes coding for sporamin and beta-amylase; Binding site of SPF1; SPF1 also binds to the SP8b | Upstream | -574 |
Motif_441 | GAGA8HVBKN3 | GA octodinucleotide repeat found in intron IV of the barley gene Bkn3; Binding site for GAGA-binding factor BBR | Upstream | -273 |
| | | Upstream | -275 |
| | | Upstream | -277 |
| | | Upstream | -279 |
Motif_454 | DRECRTCOREAT | Core motif of DRE/CRT (dehydration-responsive element/C-repeat) cis-acting element found in many genes in Arabidopsis and in rice; Os DREB1A bound to GCCGAC more preferentially than to ACCGAC whereas At DREB1A bound to both GCCGAC and ACCGAC efficiently; Maize ZmDREB1A bound to DRE; HaDREB2 in Helianthus annuus (sunflower) | Upstream | -152 |
Motif_50 | AtERF-7;AtERF-4;AtERF-3;AtERF-1;AtERF-2;AtERF-5 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression. Role of an Arabidopsis AP2/EREBP-type transcriptional repressor in abscisic acid and drought stress responses | Upstream | -619 |
Motif_503 | EECCRCAH1 | EEC; Consensus motif of the two enhancer elements, EE-1 and EE-2, both found in the promoter region of the Chlamydomonas Cah1 (encoding a periplasmic carbonic anhydrase); Binding site of Myb transcription factor LCR1 | Upstream | -212 |
| | | Upstream | -303 |
Motif_520 | AMYBOX1 | amylase box; Conserved sequence found in 5'-upstream region of alpha-amylase gene of rice, wheat, barley | Intron | 798 |
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 | Intron | 5112 |
| | | Intron | 848 |
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 | Intron | 5058 |
Motif_575 | TATABOX3 | TATA box; TATA box found in the 5'upstream region of sweet potato sporamin A gene | Upstream | -782 |
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 | -152 |
Motif_609 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Intron | 798 |
| | | Intron | 558 |
| | | Upstream | -233 |
| | | Upstream | -237 |
Motif_614 | MYBGAHV | Central element of gibberellin (GA) response complex (GARC) in high-pI alpha-amylase gene in barley; Similar to c-myb and v-myb consensus binding site; GAmyb binds specifically to the TAACAAA box in vitro; GAmyb is the sole GA-regulated transcriptional factor required for transcriptional activation of the high-pI alpha-amylase; GARC consist of the pyrimidine, TAACAAA and TATCCAC boxes; GARE in RAmy1A gene; GARE and pyrimidine box in RAmy1A are partially involved in sugar repression | Intron | 798 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Upstream | -201 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Upstream | -313 |
Motif_640 | RYREPEATBNNAPA | RY repeat found in RY/G box (the complex containing the two RY repeats and the G-box) of napA gene in Brassica napus; Found between -78 and -50; Required for seed specific expression;dist B ABRE mediated transactivation by ABI3 adn ABI3-dependent response to ABA; a tetramer of the composite RY/G complex mediated only ABA-independent transactivation by ABI3; B2 domain of ABI3 is necessary for ABA-independent and ABA-dependent activation through the dist B ABRE | Upstream | -589 |
Motif_643 | DRE2COREZMRAB17 | DRE2 core found in maize rab17 gene promoter; DBF1 and DBF2 bound to DRE2; rab17 is expressed during late embryogenesis, and is induced by ABA | Upstream | -152 |
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 | Intron | 533 |
| | | Upstream | -200 |
| | | Upstream | -332 |
| | | Upstream | -555 |
| | | Upstream | -584 |
Motif_672 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Intron | 798 |
| | | Intron | 558 |
| | | Upstream | -233 |
| | | Upstream | -237 |
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 | Intron | 533 |
| | | Upstream | -200 |
| | | Upstream | -555 |
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 | Intron | 447 |
| | | Intron | 445 |
| | | Upstream | -189 |
| | | Upstream | -191 |
| | | Upstream | -193 |
| | | Upstream | -273 |
| | | Upstream | -275 |
| | | Upstream | -277 |
| | | Upstream | -279 |
| | | Upstream | -281 |
| | | Upstream | -283 |
| | | Upstream | -285 |
| | | Upstream | -287 |
| | | Upstream | -368 |
| | | Upstream | -370 |
| | | Upstream | -372 |
| | | Upstream | -374 |