Matrix_130 | TCP16 | Not available | Upstream | -1786 |
Matrix_144 | AT5G08330;AT5G23280 | Not available | Upstream | -1395 |
Matrix_191 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -564 |
Matrix_196 | TCP20;AT5G41030 | Not available | Upstream | -533 |
| | | Upstream | -534 |
Matrix_214 | AP1 | Not available | Upstream | -848 |
Matrix_216 | TCP16 | Not available | Upstream | -1786 |
Matrix_232 | TCP23 | Not available | Upstream | -534 |
| | | Upstream | -535 |
| | | Upstream | -1394 |
Matrix_235 | WRKY67;WRKY64;WRKY63;WRKY66 | Not available | Upstream | -346 |
Matrix_24 | POC1 | Not available | Upstream | -563 |
Matrix_249 | WRKY11 | Not available | Upstream | -346 |
Matrix_25 | AP3 | Not available | Downstream | 2087 |
Matrix_266 | TCP16 | Determinants of the DNA binding specificity of class I and class II TCP transcription factors | Upstream | -1786 |
Matrix_269 | FHY3/FAR1 | Not available | Downstream | 1398 |
Matrix_280 | TCP24;TCP1;BRC2;ATTCP18 | Not available | Upstream | -534 |
Matrix_294 | MEE35 | Not available | Upstream | -1786 |
Matrix_297 | TCP15 | Not available | Upstream | -534 |
| | | Upstream | -535 |
| | | Upstream | -1394 |
Matrix_314 | WRKY65;WRKY14;WRKY35;WRKY69;WRKY16;ATWRKY52 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_316 | WRKY15;WRKY39;WRKY7;WRKY74 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_325 | WRKY4;WRKY3;WRKY58;ATWRKY34;WRKY20;ATWRKY2 | Not available | Upstream | -346 |
| | | Upstream | -347 |
Matrix_329 | WRKY12 | Not available | Upstream | -346 |
Matrix_34 | RAV1_2 | RAV1, a novel DNA-binding protein, binds to bipartite recognition sequence through two distinct DNA-binding domains uniquely found in higher plants | Upstream | -608 |
Matrix_348 | AT5G51910 | Not available | Upstream | -535 |
| | | Upstream | -536 |
| | | Upstream | -1395 |
Matrix_40 | TCP2 | Not available | Upstream | -1786 |
Matrix_401 | MYB55 | Not available | Upstream | -575 |
Matrix_42 | AT2G45680 | Not available | Upstream | -535 |
| | | Upstream | -536 |
| | | Upstream | -1395 |
Matrix_463 | HAT3.1 | Not available | Downstream | 1291 |
Matrix_467 | RAV1 | Not available | Upstream | -608 |
Matrix_477 | RAV1 | Not available | Upstream | -608 |
Matrix_48 | PI | Not available | Upstream | -328 |
Matrix_507 | TCP3 | Not available | Upstream | -534 |
| | | Upstream | -535 |
| | | Upstream | -1394 |
| | | Upstream | -1785 |
Matrix_511 | AT1G05805;AT1G35460;AT1G51140;AT2G42280;AT2G43140;AT4G09180 | Not available | Upstream | -944 |
Matrix_58 | WRKY55;ATWRKY54;WRKY46;WRKY70;AtWRKY41;WRKY53;WRKY30 | Not available | Upstream | -347 |
| | | Upstream | -348 |
Motif_115 | HSEs binding site motif | Arabidopsis and the heat stress transcription factor world: how many heat stress transcription factors do we need? | Upstream | -928 |
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) | Downstream | 1434 |
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 | -569 |
| | | Upstream | -1584 |
Motif_15 | AMYBOX2 | amylase box; amylase element; Conserved sequence found in 5'upstream region of alpha-amylase gene of rice, wheat, barley | Upstream | -890 |
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 | Downstream | 1322 |
| | | Downstream | 1315 |
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 | -350 |
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 | -337 |
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 | -350 |
| | | Upstream | -569 |
| | | Upstream | -852 |
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 | -350 |
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 | -751 |
| | | Upstream | -767 |
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 | Downstream | 1366 |
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 | Upstream | -347 |
Motif_279 | POLASIG3 | Plant polyA signal; Consensus sequence for plant polyadenylation signal | Upstream | -753 |
Motif_307 | TATCCAYMOTIFOSRAMY3D | TATCCAY motif found in rice RAmy3D alpha-amylase gene promoter; a GATA motif as its antisense sequence; TATCCAY motif and G motif are responsible for sugar repression | Upstream | -890 |
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 | Downstream | 1430 |
| | | Upstream | -754 |
| | | Upstream | -770 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Upstream | -350 |
Motif_337 | WRKY11 | Studies on DNA-binding selectivity of WRKY transcription factors lend structural clues into WRKY-domain function | Upstream | -345 |
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 | Downstream | 1431 |
| | | Upstream | -769 |
| | | Upstream | -879 |
Motif_419 | MYB4 binding site motif | Not available | Upstream | -148 |
Motif_437 | ANAERO2CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1) | Upstream | -623 |
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 | -569 |
| | | Upstream | -1584 |
Motif_450 | E2FCONSENSUS | E2F consensus sequence of all different E2F-DP-binding motifs that were experimentally verified in plants | Upstream | -961 |
Motif_490 | PROLAMINBOXOSGLUB1 | Prolamine box found in the rice GluB-1 gene promoter; Involved in quantitative regulation of the GluB-1 gene | Downstream | 1314 |
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 | -1705 |
Motif_530 | CPBCSPOR | The sequence critical for Cytokinin-enhanced Protein Binding in vitro, found in -490 to -340 of the promoter of the cucumber POR (NADPH-protochlorophyllide reductase) gene | Upstream | -990 |
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 | Downstream | 1315 |
| | | Upstream | -981 |
Motif_549 | TBF1 | The HSF-like transcription factor TBF1 is a major molecular switch for plant growth-to-defense transition | Downstream | 1398 |
Motif_552 | MRE1 | MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1 | Upstream | -633 |
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 | 1323 |
Motif_585 | ATB2/AtbZIP53/AtbZIP44/GBF5 BS in ProDH | PRE (Pro- or hypoosmolarity-responsive element) found in the promoter region of proline dehydrogenase (ProDH) gene in Arabidopsis; Core of 9-bp sequence ACTCATCCT which is necessary for the efficient expression of ProDH in response to L-Pro and hypoosmolarity; ATB2-binding site; Similar to GCN4 motif (ATGA(C/G)TCAT); ATB2 subgroup of bZIP transcription factors function as transcriptional activator for hypoosmolarity-inducible ProDH; A Novel Subgroup of bZIP Proteins Functions as Transctiptional Activators in Hypsosmolarity-Responsive Expression of the ProDH gene in Arabidopsis | Upstream | -127 |
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 | -518 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Downstream | 1432 |
| | | Downstream | 1227 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Upstream | -875 |
Motif_628 | TATCCAOSAMY | TATCCA element found in alpha-amylase promoters of rice at positions ca.90 to 150bp upstream of the transcription start sites; Binding sites of OsMYBS1, OsMYBS2 and OsMYBS3 which mediate sugar and hormone regulation of alpha-amylase gene expression; See also AMYBOX2 | Upstream | -891 |
Motif_645 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -852 |
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 | 1427 |
| | | Downstream | 1228 |
| | | Upstream | -929 |
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 | Downstream | 1427 |
| | | Downstream | 1228 |
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 | -321 |
| | | Upstream | -323 |
| | | Upstream | -325 |
| | | Upstream | -327 |
| | | Upstream | -1310 |
| | | Upstream | -1312 |
| | | Upstream | -1314 |
Motif_83 | CIACADIANLELHC | Region necessary for circadian expression of tomato Lhc gene | Upstream | -590 |
Motif_98 | SEF3MOTIFGM | SEF3 binding site; Soybean consensus sequence found in the 5' upstream region of beta-conglycinin (7S globulin) gene; AACCCA(-27bp-)AACCCA; SEF=soybean embryo factor; SEF2; SEF3; SEF4 | Upstream | -146 |
| | | Upstream | -1085 |