| Motif_444 | OCTAMOTIF2 | Octamer motif found in histone-gene-specific consensus sequences; 200 base upstream from the initiation codon ATG; Exist in all of seven plant histone genes | | 75.00% |
| 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 | | 62.50% |
| Motif_193 | GLK1 | GLK transcription factors coordinate expression of the photosynthetic apparatus in Arabidopsis | | 62.50% |
| Motif_510 | LTRECOREATCOR15 | Core of low temperature responsive element (LTRE) of cor15a gene in Arabidopsis; A portion of repeat-C (C-repeat), TGGCCGAC, which is repeated twice in cor15a promoter; ABA responsiveness; Involved in cold induction of BN115 gene from winter Brassica napus; LTRE; Light signaling mediated by phytochrome is necessary for cold- or drought- induced gene expression through the C/DRE in Arabidopsis | | 62.50% |
| Motif_36 | OCETYPEIINTHISTONE | Type II element; Oct-containing composite element Type II found in tobacco histone gene promoter; Oct (octomer) motif is paired with TCA motif to form Type II element; Required for S-phase specific and meristematic tissue-specific expression | | 62.50% |
| 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) | | 56.25% |
| Matrix_73 | DEAR3; RAP2.9; RAP2.10 | Not Available | | 53.86% |
| Matrix_490 | AtMYB77; ATMYB44 | Not Available | | 53.47% |
| 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) | | 53.35% |
| Matrix_45 | DRN | Not Available | | 51.85% |
| Motif_292 | MYBPZM | Core of consensus maize P (myb homolog) binding site; 6 bp core; Maize P gene specifies red pigmentation of kernel pericarp, cob, and other floral organs; P binds to A1 gene, but not Bz1 gene; Maize C1 (myb homolog) activates both A1 and Bz1 genes | | 51.67% |
| Motif_165 | AP3SV40 | AP-3 binding site consensus sequence in enhancer regions of SV40, MMTV, MLV, IL2 | | 51.67% |
| Matrix_478 | AT1G01250 | Not Available | | 51.46% |
| Matrix_63 | ARR10 | Not Available | | 51.01% |
| Matrix_147 | ERF3; AT1G80580 | Not Available | | 50.94% |
| Motif_291 | ABFs binding site motif | Binding site of trans-acting factor EMBP-1; wheat Em gene;Binding site of ABFs; ABFs (ABRE binding factors) were isolated from Arabidopsis by a yeast one-hybrid screening system; Expression ABFs is induced by ABA and various stress treatment; ABFs belongs to a distinct subfamily of bZIP proteins; Involved in ABA-mediated stress-signaling pathway;A plant leucine zipper protein that recognizes an abscisic acid response element | | 50.00% |
| Motif_353 | HEXAMERATH4 | hexamer motif of Arabidopsis thaliana histone H4 promoter;Identification of cis-elements regulating the expression of an Arabidopsis histone H4 gene | | 50.00% |
| Motif_278 | CELLCYCLESC | cell cycle box found in URS2 (-940/-200) of HO gene of S.cerevisiae; cell-cycle-specific activation of transcription | | 50.00% |
| Motif_584 | UPRE-III(bZIP60) | The plant-specific transcription factor NAC103 is induced by bZIP60 through a new cis-regulatory element to modulate the unfolded protein response in Arabidopsis | | 50.00% |
| Motif_602 | E2Fc; E2Fd | The E2F family of transcription factors from Arabidopsis thaliana. Novel and conserved components of the retinoblastoma/E2F pathway in plants | | 50.00% |
| Motif_324 | MYBST1 | Core motif of MybSt1 (a potato MYB homolog) binding site; MybSt1 cDNA clone was isolated by using CaMV 35S promoter domain A as a probe; The Myb motif of the MybSt1 protein is distinct from the plant Myb DNA binding domain described so far | | 50.00% |
| 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 | | 50.00% |
| Motif_95 | UPRE2AT | XBP1 binding site-like sequence found in the plant UPRE (unfolded protein response element) in Arabidopsis thaliana;Either of ERSEII or XBP1 binding sites is essential and sufficient for the UPR | | 50.00% |
| 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 | | 50.00% |
| Motif_163 | BOXCPSAS1 | Box C in pea (P.s.) asparagine synthetase (AS1) gene; Found at -45; AS1 is negatively regulated by light; Box C binds with nuclear proteins, which was competed by a putative repressor element RE1 | | 50.00% |
| 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 | | 50.00% |
| Motif_146 | CCAATBOX1 | Common sequence found in the 5'-non-coding regions of eukaryotic genes; CCAAT box found in the promoter of heat shock protein genes; Located immediately upstream from the most distal HSE of the promoter; CCAAT box act cooperatively with HSEs to increase the hs promoter activity | | 50.00% |
| Motif_118 | CAATBOX2 | CAAT box found in the 5' upstream region (-80) of many eukaryotic genes; GGC(or T)CAATCT | | 50.00% |
| Motif_93 | RGATAOS | R-GATA (GATA motif binding factor) binding site; GATA motif is found at -143 to -135 of RTBV promoter; GATA motif is required for phloem-specific gene expression of Rice Tungro Bacilliform Virus (RTBV); See also RNFG1OS, RNFG2OS, and ABFOS | | 50.00% |
| 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 | | 50.00% |
| Motif_72 | GADOWNAT | Sequence present in 24 genes in the GA-down regulated d1 cluster (106 genes) found in Arabidopsis seed germination; This motif is similar to ABRE | | 50.00% |
| Motif_622 | SORLIP2AT | one of Sequences Over-Represented in Light-Induced Promoters (SORLIPs) in Arabidopsis; Computationally identified phyA-induced motifs; See also all SORLIPs and also all SORLREPs; Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray data | | 50.00% |
| Motif_610 | GATA-2; GATA-4; GATA-3; GATA-1 | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | | 50.00% |
| 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 | | 50.00% |
| Motif_226 | E2F1OSPCNA | re2f-1 found in the promoter of rice PCNA gene; Located between -142 and -135; te2f-1 found in the promote of Tobacco PCBA gene; Located between -122 and -115; Binding site of OsE2F1 and OsE2F2; Involved in transcriptional activation in actively dividing cells and tissue | | 50.00% |
| Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | | 50.00% |
| Motif_263 | RYREPEATVFLEB4; ABI3 | RY repeat motif; quantitative seed expression; Gene: Vicia faba LeB4; Soybean glycinin (Gy2); other dicot and monocot seed protein genes; Sph box found in rice Osem gene promoter; Binding site of Arabidopsis B3-domain-containing transcription factor FUS3; TRAB1, bZIP transcription factor, interacts with VP1 and mediates abscisic acid-induced transcritption; FUS3 protein physically interact with two RY elements present in the AtGA3ox promoter;RY repeats are conserved in the 5 prime-flanking region of legume seed protein genes. Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | | 50.00% |
| 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 | | 50.00% |
| Motif_418 | ABRE2HVA22 | ABRE2 of barley HVA22 gene; G-box; component of ABA response complex in HVA22 gene; see ABRE3 of HVA22 gene; see CE1 (coupling element 1 = TGCCACCGG) | | 50.00% |
| Motif_525 | CRTDREHVCBF2 | Preferred sequence for AP2 transcriptional activator HvCBF2 of barley; Core CRT/DRE motif; HvCBF2 bound to a (G/a)(T/c)CGAC core motif; DNA binding is regulated by temperature | | 50.00% |
| Motif_435 | E2FBNTRNR | E2Fb found in the tobacco RNR (Ribonucleotide reductase) gene promoter; Binding site of tobacco E2F; Involved in upregulation of the promoter at G1/S transition; dE2F (distal reverse E2F element) important for regulating specific RNR1a gene expression in respsonse to UV-C irradiation | | 50.00% |
| Motif_414 | ABI3 | Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | | 50.00% |
| Motif_407 | CE3OSOSEM | CE3 (Coupling Element 3) found in the promoter of the rice Osem gene; Required for ABA-responsiveness and VP1 activation; Binding site of TRAB1; Motif A and CE3 are functionally equivalent; TRAB1, bZIP transcription factor, interacts with VP1 and mediates abscisic acid-induced transcritption | | 50.00% |
| Motif_544 | CACGCAATGMGH3 | Sequence found in D4 element in Soybean GH3 gene promoter; Showed constitutive activity with TGTCTC element; Confers auxin inducibility; Binding site of nuclear protein | | 50.00% |
| Motif_545 | SORLIP1AT | one of Sequences Over-Represented in Light-Induced Promoters (SORLIPs) in Arabidopsis; Computationally identified phyA-induced motifs; SORLIP 1 is most over-represented, and most statistically singnificant; Over-represented in light-induced cotyledon and root common genes and root-specific genes | | 50.00% |
| Motif_437 | ANAERO2CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1) | | 50.00% |
| Motif_438 | CAMTA5; CAMTA1; CAMTA2; CAMTA3 | Roles for Arabidopsis CAMTA transcription factors in cold-regulated gene expression and freezing tolerance | | 50.00% |
| Motif_483 | ABREMOTIFAOSOSEM | motif A ABRE-like sequence found in rice Osem gene promoter; Essential for activation by VP1; Important for regulation by ABA;TRAB1, bZIP transcription factor, interacts with VP1 and mediates abscisic acid-induced transcritption;ABRE motif A found in the promoter of the rice Osem gene; ACGT-containing ABRE; Required for ABA-responsiveness and VP1 activation; Binding site of TRAB1; Motif A and CE3 are functionally equivalent; TRAB1, bZIP transcription factor, interacts with VP1 and mediates abscisic acid-induced transcritption | | 50.00% |
| Motif_485 | NRRBNEXTA | NRR (negative regulatory region) in promoter region of Brassica napus extA extensin gene; Removal of this region leads to expression in all tissues within the stem internode, petiole and root | | 50.00% |
| Motif_459 | SORLIP1 | Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray data | | 50.00% |
| Motif_511 | RYREPEATGMGY2 | RY repeat motif (CATGCAT); Present in the 5' region of the soybean glycinin gene (Gy2) | | 50.00% |
| Motif_442 | GT2OSPHYA | GT-2 (a rice nuclear protein) binding site in a rice phyA promoter; phyA gene are transcriptionaly repressed in response to light; One of GT elements;The HMG-1/Y protein PF1 stimulates binding of the GT-2 to PHYA gene promoter | | 50.00% |
| 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 | | 50.00% |
| 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 | | 50.00% |
| Motif_531 | AP2SV40 | AP-2 binding site in enhancer regions of SV40 and human metallothionein IIA (hMT IIA) | | 50.00% |
| Motif_369 | SURECOREATSULTR11 | Core of sulfur-responsive element (SURE) found in the promoter of SULTR1;1 high-affinity sulfate transporter gene in Arabidopsis; SURE contains auxin response factor (ARF) binding sequence (GAGACA)(see S000270 ARF:TGTCTC; its complementary seq is GAGACA), and this core sequence is a part of it; this core seq is involved in -S response; Beware of other SURE (sucrose responsive element) | | 50.00% |
| Motif_368 | CBF1 BS in cor15a | Determinants in the sequence specific binding of two plant transcription factors, CBF1 and NtERF2, to the DRE and GCC motifs | | 50.00% |
| Motif_362 | TGA2 octamer | palindromic octamer found enriched in chip-chip regions for TGA2 | | 50.00% |
| Motif_33 | ACGTCBOX | C-box according to the nomenclature of ACGT elements; One of ACGT elements; Factors groups 1, 2 and 3 have affinity for C-box;RITA-1 binding site | | 50.00% |
Expansion plot
Gene family finder
Ks-graphs
Skyline plot
Synteny plot
WGDotplot
Functional clusters
WGMapping
BLAST
Workbench