PLAZA 3.0 Dicots : Binding Sites

Binding sites with simlar sequences

Binding site: Matrix_242
Name: AT2G25820; AT3G16280; AT4G32800; TINY2; tny
Description: Not Available

Positional Weight Matrix

Minimum similarity percentage

Binding site	Name	Description	Similarity
Matrix_73	DEAR3; RAP2.9; RAP2.10	Not Available	93.89%
Matrix_478	AT1G01250	Not Available	92.49%
Motif_54	LTREATLTI78	Putative low temperature responsive element (LTRE); Found in Arabidopsis thaliana low-temperature-induced (lti) genes, lti78 and lti65; Repeated four times in lti78 which is also known as cor78 and rd29A; Found also in barley low temperature responsive genes, blt4.2, blt4.6, blt4.9 (lipid transfer genes); cold inducible; See LTRECORE; Also present in rab18, kin1, and kin2; Differential expression of two related, low-temperature-induced genes in Arabidopsis thaliana	83.29%
Motif_371	DRE-like promoter motif	The Expression Profile Matrix of Arabidopsis Transcription Factor Genes Suggests Their Putative Functions in Response to Environmental Stresses	75.77%
Motif_620	DREB1&2 BS in rd29a	Related to responsiveness to drought, low-temperature or high-salt stress; Binding site of DREB1 and DREB2: Binding site of Arabidopsis CBF1(C-repeat/DRE binding factor); Overexpression of DREB1A activated the expression of stress tolerance genes; CBF1 overexpression induces COR genes and enhances freezing tolerance; Heterologous CBF1 expression enhances oxidative stresses tolerance; DRE and ABRE are interdependent in the ABA-responsive expression of the rd29A in Arabidopsis;Improving plant drought, salt, and freezing tolerance by gene transfer of a single stress-inducible transcription factor	74.37%
Matrix_394	DREB_U	Not Available	73.55%
Matrix_484	ATERF13	Not Available	72.65%
Matrix_147	ERF3; AT1G80580	Not Available	72.29%
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)	71.79%
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	71.77%
Matrix_295	ERF1	Not Available	70.85%
Motif_233	DRE1COREZMRAB17	DRE1 core found in maize rab17 gene promoter; DRE1 was protected, in in vivo footprinting, by a protein in embryos specifically, but in leaves, was protected when was treated with ABA and drought; rab17 is expressed during late embryogenesis, and is induced by ABA	70.83%
Matrix_5	AT5G51190; ERF104	Not Available	70.80%
Matrix_292	FTQ4	Not Available	70.58%
Matrix_45	DRN	Not Available	70.45%
Matrix_385	DEAR4	Not Available	69.94%
Matrix_244	DREB2C	Not Available	67.74%
Motif_127	SBOXATRBCS	S-box conserved in several rbcS promoters in Arabidopsis; ABI4 binding site; Important for the sugar and ABA responsiveness of CMA5	66.70%
Motif_32	DREB2A; DREB1A; AtTINY2; DREB1C; DREB1B	Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana. Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems.Low temperature regulation of the Arabidopsis CBF family of AP2 transcriptional activators as an early step in cold-induced COR gene expression.Arabidopsis thaliana CBF1 encodes an AP2 domain-containing transcriptional activator that binds to the C-repeat/DRE, a cis-acting DNA regulatory element that stimulates transcription in response to low temperature and water deficit.Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses	66.63%
Matrix_387	ORA47	Not Available	66.35%
Matrix_360	ORA59	Not Available	66.25%
Matrix_92	AT1G33760	Not Available	65.90%
Matrix_395	AT1G19210; ORA47; AT4G31060; AT5G21960	Not Available	65.73%
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)	65.57%
Matrix_517	ERF12	Not Available	64.56%
Matrix_61	ATCBF3	Not Available	64.05%
Motif_666	MYB binding site promoter	A flower-specific Myb protein activates transcription of phenylpropanoid biosynthetic genes	63.60%
Matrix_321	HRD	Not Available	63.00%
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	62.40%
Matrix_344	ATERF15; AT4G18450	Not Available	62.17%
Motif_457	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	61.91%
Motif_100	DREB2A; DREB1A	Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems;Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses	61.87%
Motif_140	DREB2A; DREB1A	Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems;Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses	61.87%
Motif_478	DREB2A; DREB1A	Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems;Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses	61.87%
Motif_607	DREB2A; DREB1A	Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems.Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses	61.87%
Motif_274	MYB1 binding site motif	Isolation and characterization of a fourth Arabidopsis thaliana G-box-binding factor, which has similarities to Fos oncoprotein	61.69%
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	61.46%
Matrix_377	AT1G75490; DREB2C; AT2G40350; AT5G18450	Not Available	61.45%
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	61.08%
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	61.08%
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	61.08%
Motif_625	AtERF-4; AtERF-3	Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression	61.08%
Motif_144	DREB2A; DREB1A	Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems;Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses	61.04%
Matrix_454	AT1G77200; ATERF38; AT4G16750; AT5G52020	Not Available	60.80%
Motif_509	AtTINY2	Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana	60.40%
Matrix_515	ddf2; ATCBF3; CBF1; CBF4	Not Available	59.99%
Motif_426	MYB58; MYB63	MYB58 and MYB63 are transcriptional activators of the lignin biosynthetic pathway during secondary cell wall formation in Arabidopsis	59.78%
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	59.52%
Matrix_223	MYB60; ATMYB31; ATMYB30; MYB94; MYBCOV1	Not Available	59.02%
Matrix_362	DEAR3	Not Available	58.68%
Motif_399	UPRMOTIFIAT	Motif I in the conserved UPR (unfolded protein response) cis-acting element in Arabidopsis genes coding for SAR1B, HSP-90, SBR-like, Ca-ATPase 4, CNX1, PDI, etc.	58.58%
Motif_394	AtTINY2	Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana	58.51%
Motif_453	HEXMOTIFTAH3H4	hexamer motif found in promoter of wheat histone genes H3 and H4; CaMV35S; NOS; Binding with HBP-1A and HBP-1B; Binding site of wheat nuclear protein HBP-1 (histone DNA binding protein-1); HBP-1 has a leucine zipper motif; hexamer motif in type 1 element may play important roles in regulation of replication- dependent but not of replication-independent expression of the wheat histone H3 gene;Rice OBF1-homodimer-binding site	58.35%
Matrix_346	AtMYB70; MYB73	Not Available	57.48%
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	56.99%
Matrix_400	MYB46	MYB46 and MYB83 bind to the SMRE sites and directly activate a suite of transcription factors and secondary wall biosynthetic genes	56.99%
Matrix_486	MYB83	MYB46 and MYB83 bind to the SMRE sites and directly activate a suite of transcription factors and secondary wall biosynthetic genes	56.99%
Matrix_154	AT1G22190; AT1G36060; AT1G64380; RAP2.4; AT2G20880; AT2G22200; AT4G13620; AT4G28140; AT4G39780; AT5G65130	Not Available	56.62%
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	56.62%
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	56.27%
Motif_288	NONAMERMOTIFTAH3H4	Nonamer motif found in promoter of wheat histone genes H3 and H4	56.12%
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	55.80%
Motif_685	PALINDROMICCBOXGM	Palindromic C-box in soybean;bZIP factors, STGA1 and STFs (STF1 and STF2) found in soybean apical hypocotyl, bind to this sequence	55.71%
Motif_122	TGTCACACMCUCUMISIN	TGTCACA motif found in the region (from -254 to -215) of cucumisin (a subtilisin-like serine protease) in the fruit of melon; A novel enhancer element necessary for fruit-specific expression of the cucumisin gene	55.69%
Motif_60	AtERF-4; AtERF-3	Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression	55.68%
Motif_405	DREB2A; DREB1A	Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems. Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses	55.64%
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	55.24%
Matrix_139	OBF5	Not Available	54.26%
Motif_278	CELLCYCLESC	cell cycle box found in URS2 (-940/-200) of HO gene of S.cerevisiae; cell-cycle-specific activation of transcription	54.24%
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	54.21%
Motif_436	WRKY18	Identification of genes encoding receptor-like protein kinases as possible targets of pathogen- and salicylic acid-induced WRKY DNA-binding proteins in Arabidopsis	54.20%
Motif_559	RAV1-A binding site motif; RAV1AAT	Binding consensus sequence of 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	54.19%
Motif_89	AtTINY2	Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana	54.17%
Motif_319	AtTINY2	Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana	54.17%
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	53.91%
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	53.53%
Motif_452	MYB4 binding site motif	Expression profile matrix of Arabidopsis transcription factor genes suggests their putative functions in response to environmental stresses	53.08%
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	53.06%
Matrix_261	ATERF-1	Not Available	53.01%
Motif_162	ABRE3HVA22	ABRE3 of barley HVA22 gene; G-box; component of ABA response complex in HVA22 gene; ABA response complex 1(ABRC1)=A3(previously designated ABRE3)+CE1	52.92%
Matrix_426	CRF1; CRF2	Not Available	52.71%
Motif_630	WBOXNTCHN48	W box identified in the region between -125 and -69 of a tobacco class I basic chitinase gene CHN48; NtWRKY1, NtWRKY2 and NtWRKY4 bound to W box; NtWRKYs possibly involved in elicitor-respsonsive transcription of defense genes in tobacco	52.16%
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	52.09%
Motif_618	MYB1AT	MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis	51.42%
Motif_520	AMYBOX1	amylase box; Conserved sequence found in 5'-upstream region of alpha-amylase gene of rice, wheat, barley	51.14%
Motif_353	HEXAMERATH4	hexamer motif of Arabidopsis thaliana histone H4 promoter;Identification of cis-elements regulating the expression of an Arabidopsis histone H4 gene	50.92%
Motif_657	CGACGOSAMY3	CGACG element found in the GC-rich regions of the rice Amy3D and Amy3E amylase genes, but not in Amy3E gene; May function as a coupling element for the G box element	50.90%
Matrix_91	CRF3	Not Available	50.65%
Matrix_506	DRNL; ATERF-4	Not Available	50.63%
Matrix_86	CRF5; CRF6; CRF4	Not Available	50.62%
Motif_293	NONAMERATH4	Nonamer motif of Arabidopsis thaliana histone H4 promoter;Identification of cis-elements regulating the expression of an Arabidopsis histone H4 gene	50.53%
Motif_543	TATCCACHVAL21	TATCCAC box is a part of the conserved cis-acting response complex (GARC) that most often contain three sequence motifs, the TAACAAA box, or GA-responsive element (GARE); the pyrimidine box, CCTTTT (see S000259); and the TATCCAC box, which are necessary for a full GA response	50.42%
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	50.41%
Matrix_490	AtMYB77; ATMYB44	Not Available	50.22%