PLAZA 3.0 Dicots : Binding Sites

Binding sites with simlar sequences

Binding site: Motif_143
Name: VND6
Description: Arabidopsis VASCULAR-RELATED NAC-DOMAIN6 directly regulates the genes that govern programmed cell death and secondary wall formation during xylem differentiation

Sequence: CTTNAAAGCNA
Positional Weight Matrix

Minimum similarity percentage

Binding site	Name	Description	Similarity
Motif_496	JASE1ATOPR1	JASE1found in promoter of Arabidopsis thaliana 12-oxo-phytodienoic acid-10,11-reductase (OPR1) gene; Located between -179 and -170; Involved in up-regulation by both senescence and JA;Identical promoter elements are involved in regulation of the OPR1 gene by senescence and jasmonic acid in Arabidopsis	61.59%
Motif_524	WRKY40; WRKY62; WRKY18	Identification of genes encoding receptor-like protein kinases as possible targets of pathogen- and salicylic acid-induced WRKY DNA-binding proteins in Arabidopsis. Arabidopsis WRKY38 and WRKY62 transcription factors interact with histone deacetylase 19 in basal defense. Physical and functional interactions between pathogen-induced Arabidopsis WRKY18, WRKY40, and WRKY60 transcription factors	61.59%
Motif_257	BOX1PSGS2	Box 1 element in pea glutamine synthetase (GS2) gene; An element in a 33-bp AT-rich sequence (box 1) of the 5' end of a GS2 promoter; Located at -837 to -827 of pea GS2; Multimer of box 1 element was used to isolate a cDNA encoding an AT-rich DNA binding protein (ATBP-1)	61.59%
Motif_588	TL1ATSAR	TL1, a consensus sequence overrepresented in the promoter regions of all 13 NPR1-responsive ER-resident genes surveyed; NPR1 is Nonexpressor of pathogenesis-related genes 1, also known as NIM1	61.59%
Motif_598	SORLIP3AT	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	61.59%
Matrix_72	CDF2	Not Available	61.21%
Matrix_227	AT1G64620	Not Available	59.88%
Matrix_255	cdf3	Not Available	58.47%
Matrix_501	DAG2	Not Available	58.46%
Motif_248	L1-box	Arabidopsis DELLA and two HD-ZIP transcription factors regulate GA signaling in the epidermis through the L1 box cis-element	58.07%
Motif_683	AtMYB2 BS in RD22	Binding site for MYB (ATMYB2) in dehydration-responsive gene, rd22; MYB binding site in rd22 gene of Arabidopsis thaliana; ABA-induction; Located at ca. -141 of rd22 gene; Also MYC at ca. -200 of rd22 gene; Role of Arabidopsis MYC and MYB homologs in drought- and abscisic acid-regulated gene expression	58.07%
Motif_519	MYB80	The MYB80 transcription factor is required for pollen development and the regulation of tapetal programmed cell death in Arabidopsis thaliana	58.07%
Motif_568	MYB98	MYB98 positively regulates a battery of synergid-expressed genes encoding filiform apparatus localized proteins	58.07%
Motif_470	MYB98	MYB98 positively regulates a battery of synergid-expressed genes encoding filiform apparatus localized proteins	58.07%
Matrix_163	AT2G20110	Not Available	56.90%
Motif_634	ANAERO4CONSENSUS	One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1)	56.34%
Matrix_404	OBP4	Not Available	54.99%
Motif_580	L1BOXATPDF1	L1 box found in promoter of Arabidopsis thaliana PROTODERMAL FACTOR1 (PDF1) gene; Located between -134 and -127; Involved in L1 layer-specific expression; L1-specific homeodomain protein ATML can bind to the L1 box; Y=C/T; A cotton fiber gene, RD22-like 1 (RDL1), contains a homeodomain binding L1 box and a MYB binding motif ; HDZip IV; Identification of a cis-regulatory element for L1 layer-specific gene expression, which is targeted by an L1-specific homeodomain protein	54.86%
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	54.04%
Matrix_411	DOF5.6	Not Available	53.36%
Matrix_231	HDG2; HDG3; ATML1; HB-7	Not Available	52.88%
Motif_373	TATABOX1	TATA box; TATA box found in the 5'upstream region of rice alpha-amylase; TATA box found in beta-phaseolin promoter; sequence and spacing of TATA box elements are critical for accurate initiation	52.50%
Motif_604	EMHVCHORD	Endosperm motif (EM) found in the promoter of barley c-hordein gene; Involved in the nitrogen response of c-hordein promoter	52.50%
Motif_508	CEREGLUBOX1PSLEGA	cereal glutenin box in pea legumin gene (legA); sequence homologous to the cereal glutenin gene control element (-300 element)	52.50%
Motif_49	TATAPVTRNALEU	TATA-like motif; A TATA-like sequence found in Phaseolus vulgaris tRNALeu gene promoter; Frequently observed upstream of plant tRNA genes; Found in maize glycolytic glyceraldehyde-3-phospate dehydrogenase 4 (GapC4) gene promoter; Binding site of TATA binding protein (TBP)	52.50%
Motif_255	B2GMAUX28	B2; DNase I protected sequence found in the soybean auxin responsive gene, Aux28, promoter; Located between -310 and -301; Contains a TGACGACA sequence which is similar to TGACGT/C sequence found in Ocs, CaMV35S and histone H3 promoter; Contains as-1 motif	52.50%
Motif_564	MYB98	MYB98 positively regulates a battery of synergid-expressed genes encoding filiform apparatus localized proteins	52.50%
Motif_301	SPHZMC1	Sph element found in the maize C1 gene promoter; Located between -142 and -132; Essential for VP1 activation; VP1 gene is specifically required for expression of the maturation program in seed development; VP1 is a novel transcription factor possibly involved in potentiation of a seed-specific hormone response	52.50%
Motif_445	PDF2; ATML1	Regulation of shoot epidermal cell differentiation by a pair of homeodomain proteins in Arabidopsis. Identification of a cis-regulatory element for L1 layer-specific gene expression, which is targeted by an L1-specific homeodomain protein	52.50%
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	52.50%
Motif_296	MYB98	MYB98 positively regulates a battery of synergid-expressed genes encoding filiform apparatus localized proteins	52.50%
Motif_59	CEREGLUBOX3PSLEGA	cereal glutenin box in pea (P.s.) legumin gene (legA); sequence homologous to the cereal glutenin gene control elements	52.50%
Motif_420	SORLREP2AT	one of Sequences Over-Represented in Light-Repressed Promoters (SORLREPs) in Arabidopsis; Computationally identified phyA-repressed motifs; See also all SORLREPs and all SORLIPs; Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray data	52.50%
Motif_476	XYLAT	cis-element identified among the promoters of the core xylem gene set	52.50%
Motif_288	NONAMERMOTIFTAH3H4	Nonamer motif found in promoter of wheat histone genes H3 and H4	52.50%
Motif_394	AtTINY2	Molecular cloning, phylogenetic analysis, expressional profiling and in vitro studies of TINY2 from Arabidopsis thaliana	52.50%
Motif_423	MYB2	Evidence for a role for AtMYB2 in the induction of the Arabidopsis alcohol dehydrogenase gene (ADH1) by low oxygen	52.50%
Motif_416	MYB80	The MYB80 transcription factor is required for pollen development and the regulation of tapetal programmed cell death in Arabidopsis thaliana	52.50%
Motif_534	GBOXRELOSAMY3	G box-related element found in Amy3D (amylase) promoter of rice; Similar to ABRE	52.50%
Motif_188	CDA1ATCAB2	CDA-1 (CAB2 DET1-associated factor 1) binding site in DtRE (dark response element) f of chlorophyll a/b-binding protein2 (CAB2) gene in Arabidopsis	52.50%
Motif_27	MYB98	MYB98 positively regulates a battery of synergid-expressed genes encoding filiform apparatus localized proteins	52.50%
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	52.50%
Motif_546	AtWER	Regulation of CAPRICE transcription by MYB proteins for root epidermis differentiation in Arabidopsis	52.50%
Motif_227	WRKY43; WRKY38; WRKY26	Arabidopsis WRKY38 and WRKY62 transcription factors interact with histone deacetylase 19 in basal defense;Studies on DNA-binding selectivity of WRKY transcription factors lend structural clues into WRKY-domain function	52.50%
Motif_12	CEREGLUBOX2PSLEGA	cereal glutenin box in pea legumin gene (legA); sequence homologous to the cereal glutenin gene control element (-300 element)	52.50%
Motif_557	WRKY43; WRKY38; WRKY26	Arabidopsis WRKY38 and WRKY62 transcription factors interact with histone deacetylase 19 in basal defense. Studies on DNA-binding selectivity of WRKY transcription factors lend structural clues into WRKY-domain function	52.50%
Matrix_340	HSFC1	Not Available	52.34%
Matrix_99	DOF4.7	Not Available	52.19%
Matrix_215	ARF1	ARF1, a transcription factor that binds to auxin response elements	51.95%
Matrix_513	SOL1; TSO1; TCX2	Not Available	51.89%
Matrix_181	Dof5.7	Not Available	51.55%
Matrix_74	LFY	Not Available	51.54%
Matrix_132	SOC1	Not Available	51.30%
Matrix_494	OBP4	Not Available	51.21%
Matrix_209	RAP2.6	Not Available	51.15%
Matrix_412	GL1	Not Available	51.01%
Matrix_97	APRR2	Not Available	50.81%
Matrix_177	ADOF2	Not Available	50.80%
Matrix_58	WRKY55; ATWRKY54; WRKY46; WRKY70; AtWRKY41; WRKY53; WRKY30	Not Available	50.62%
Motif_173	HSE	HSE (heat shock response element); consensus sequence found in the promoter regions of heat shock protein genes; HSF binding site; HsfA3, a new member of the Hsf (heat stress transcription factor) family; was isolated by yeast two-hybrid screening, using HsfA1 as a bait; HsfA3 is a single copy gene with all conserved sequence elements characteristic of a heat stress transcription factor	50.46%
Matrix_258	WOX13	Not Available	50.38%
Matrix_393	REM1	Not Available	50.28%
Motif_153	MARABOX1	A-box found in SAR(scaffold attachment region; or matrix attachment region, MAR)	50.20%
Matrix_136	SEP3	Not Available	50.17%