PLAZA 3.0 Dicots : Binding Sites

Binding sites with simlar sequences

Binding site: Motif_342
Name: POLASIG1
Description: 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

Sequence: AATAAA
Positional Weight Matrix

Minimum similarity percentage

Binding site	Name	Description	Similarity
Motif_279	POLASIG3	Plant polyA signal; Consensus sequence for plant polyadenylation signal	83.33%
Motif_570	POLASIG2	PolyA signal; poly A signal found in rice alpha-amylase; -10 to -30 in the case of animal genes	83.33%
Motif_609	AP2	The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element	83.33%
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	66.67%
Motif_266	POLLEN1LELAT52	One of two co-dependent regulatory elements responsible for pollen specific activation of tomato lat52 gene; Found at -72 to -68 region;AGAAA and TCCACCATA are required for pollen specific expression; Also found in the promoter of tomato endo-beta-mannanase gene (LeMAN5) gene	66.67%
Motif_150	RBCSCONSENSUS	rbcS general consensus sequence; AATCCAA or AATCCAAC	66.67%
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	66.67%
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	66.67%
Motif_370	TATABOX2	TATA box; TATA box found in the 5'upstream region of pea legA gene; sporamin A of sweet potato; TATA box found in beta-phaseolin promoter; sequence and spacing of TATA box elements are critical for accurate initiation	66.67%
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	66.67%
Motif_242	IBOXCORE	I box; I-box; Conserved sequence upstream of light-regulated genes; Conserved sequence upstream of light-regulated genes of both monocots and dicots	66.67%
Motif_168	IBOX	I box; I-box; Conserved sequence upstream of light-regulated genes; Sequence found in the promoter region of rbcS of tomato and Arabidopsis; I box; Binding site of LeMYB1, that is a member of a novel class of myb-like proteins; LeMYBI act as a transcriptional activator; An evolutionarily conserved protein binding sequence upstream of a plant light-regulated gene	66.67%
Motif_125	BOXIINTPATPB	Box II found in the tobacco plastid atpB gene promoter; Conserved in several NCII (nonconsensus type II) promoters of plastid genes; Important for the activity of this NCII promoter	66.67%
Motif_195	TATABOX4	TATA box; TATA box found in the 5'upstream region of sweet potato sporamin A gene; TATA box found in beta-phaseolin promoter; sequence and spacing of TATA box elements are critical for accurate initiation	66.67%
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	66.67%
Motif_297	Bellringer/replumless/pennywise BS1 IN AG	Repression of AGAMOUS by BELLRINGER in Floral and Inflorescence Meristems	66.67%
Matrix_262	ATGRP2B; CSDP2	Not Available	60.34%
Motif_375	ERELEE4	ERE (ethylene responsive element) of tomato E4 and carnation GST1 genes; GST1 is related to senescence; Found in the 5'-LTR region of TLC1.1 retrotransposon family in Lycopersicon chilense; ERE motifs mediate ethylene-induced activation of the U3 promoter region	58.33%
Motif_520	AMYBOX1	amylase box; Conserved sequence found in 5'-upstream region of alpha-amylase gene of rice, wheat, barley	58.33%
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	58.33%
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	58.33%
Motif_181	IBOXCORENT	I-box core motif in the CAMs (conserved DNA modular arrays) associated with light-responsive promoter regions	58.33%
Motif_222	AGMOTIFNTMYB2	AG-motif found at -114 of the promoter of NtMyb2 gene; NtMyb2 is a regulator of the tobacco retrotransposon Tto1 and the defence-related gene phenylalanine ammonia lyase (PAL), which are induced by various stress such as wounding or elicitor treatment; AGP1 (GATA-type zinc finger protein) binding site	50.00%
Motif_138	RAP2.2	Transcription factor RAP2.2 and its interacting partner SINAT2: stable elements in the carotenogenesis of Arabidopsis leaves	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_575	TATABOX3	TATA box; TATA box found in the 5'upstream region of sweet potato sporamin A gene	50.00%
Motif_108	ROOTMOTIFTAPOX1	Motif found both in promoters of rolD	50.00%
Motif_351	GARE1OSREP1	Gibberellin-responsive element (GARE) found in the promoter region of a cystein proteinase (REP-1) gene in rice	50.00%
Motif_1	GT1CORE	Critical for GT-1 binding to box II of rbcS; Transcriptional activation by Arabidopsis GT-1 may be through interaction with TFIIA-TBP-TATA complex	50.00%
Motif_667	TATABOXOSPAL	Binding site for OsTBP2, found in the promoter of rice pal gene encoding phenylalanine ammonia-lyase; OsTFIIB stimulated the DNA binding and bending activities of OsTBP2 and synergistically enhanced OsTBP2-mediated transcription from the pal promoter	50.00%
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	50.00%
Motif_515	Core Consensus Binding Sequence	Not Available	50.00%
Motif_76	SURE1STPAT21	Sucrose Responsive Element (SURE); A motif conserved among genes regulated by sucrose; See also SURE2STPAT21; Found between -184 and -156 bp in the patatin (a major tuber protein) gene promoter of potato	50.00%
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	50.00%
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	50.00%
Motif_166	RAP2.2	Transcription factor RAP2.2 and its interacting partner SINAT2: stable elements in the carotenogenesis of Arabidopsis leaves	50.00%
Motif_590	MYB3 binding site motif	Expression profile matrix of Arabidopsis transcription factor genes suggests their putative functions in response to environmental stresses	50.00%
Motif_357	NTBBF1ARROLB	NtBBF1(Dof protein from tobacco) binding site in Agrobacterium rhizogenes rolB gene; Found in regulatory domain B (-341 to -306); Required for tissue-specific expression and auxin induction	50.00%
Motif_309	GATA promoter motif	Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics	50.00%
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	50.00%
Motif_230	GATABOX	GATA box; GATA motif in CaMV 35S promoter; Binding with ASF-2; Three GATA box repeats were found in the promoter of Petunia chlorophyll a/b binding protein, Cab22 gene; Required for high level, light regulated, and tissue specific expression; Conserved in the promoter of all LHCII type I Cab genes	50.00%
Motif_562	-300CORE	TGTAAAG core motif in -300 elements of alpha-zein genes of maize; -300 element core; prolamin box; P-box; Binds with P-box binding factor (PBF); Binds with BPBF (Barley PBF); PBF is a DNA-binding protein of the DOF class of transcription factors	50.00%
Motif_476	XYLAT	cis-element identified among the promoters of the core xylem gene set	50.00%
Motif_475	GATA-1	Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics	50.00%
Motif_164	DOFCOREZM	Core site required for binding of Dof proteins in maize; Dof proteins are DNA binding proteins, with presumably only one zinc finger, and are unique to plants; Four cDNAs encoding Dof proteins, Dof1, Dof2, Dof3 and PBF, have been isolated from maize; PBF is an endosperm specific Dof protein that binds to prolamin box; Maize Dof1 enhances transcription from the promoters of both cytosolic orthophosphate kinase (CyPPDK) and a non-photosynthetic PEPC gene; Maize Dof2 supressed the C4PEPC promoter	50.00%
Motif_272	TAAAGSTKST1	TAAAG motif found in promoter of Solanum tuberosum KST1 gene; Target site for trans-acting StDof1 protein controlling guard cell-specific gene expression; KST1 gene encodes a K+ influx channel of guard cells	50.00%
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	50.00%
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	50.00%
Motif_382	CATATGGMSAUR	Sequence found in NDE element in soybean SAUR (Small Auxin-Up RNA) 15A gene promoter; Involved in auxin responsiveness	50.00%
Motif_155	NODCON1GM	One of two putative nodulin consensus sequences; See also NODCON2GM; One of the consensus sequence motifs of organ-specific elements (OSE) characteristic of the promoters activated in infected cells of root nodules	50.00%
Motif_377	SURE2STPAT21	Sucrose Responsive Element 2 (SURE2); A motif conserved among genes regulated by sucrose; See also SURE1ST; Found between -184 and -156 bp in the patatin (a major tuber protein) gene promoter of potato	50.00%
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	50.00%