View conserved binding sites


Gene
ST01G045020
Description
Poly(A) RNA binding protein (AHRD V1 **** B2CJ74_9HYPO); contains Interpro domain(s) IPR006515 Polyadenylate binding protein, human types 1, 2, 3, 4
Alias
gene:Sotub01g045020;Sotub01g045020.1.1;Sotub01g045020;Sotub01g045020.1.1
Binding siteNameDescriptionLocationPosition
Matrix_101ERF5Not availableUpstream-311
Upstream-308
Matrix_110ATABI4;AT3G57600Not availableUpstream-310
Matrix_119RRTF1Not availableUpstream-312
Matrix_127AtMYB15More than 80R2R3-MYB regulatory genes in the genome of Arabidopsis thalianaUpstream-270
Matrix_130TCP16Not availableUpstream-530
Matrix_144AT5G08330;AT5G23280Not availableUpstream-531
Upstream-530
Matrix_147ERF3;AT1G80580Not availableUpstream-311
Upstream-308
Matrix_151ASIL1Not availableUpstream-312
Matrix_155RAP2.6;ERF110;ABR1Not availableUpstream-310
Matrix_172BES1A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thalianaUpstream-357
Matrix_179AtMYB84;MYB36;MYB68;O49746_ARATHNot availableUpstream-270
Matrix_190ATERF1Not availableUpstream-311
Upstream-310
Matrix_196TCP20;AT5G41030Not availableUpstream-533
Upstream-528
Matrix_216TCP16Not availableUpstream-530
Matrix_224ERF1Not availableUpstream-309
Matrix_232TCP23Not availableUpstream-532
Upstream-529
Matrix_234RAP2.3Not availableUpstream-311
Upstream-308
Matrix_24POC1Not availableUpstream-540
Matrix_243RAP2.12;RAP2.2Not availableUpstream-310
Matrix_244DREB2CNot availableUpstream-312
Matrix_252RAP2.6Not availableUpstream-311
Upstream-308
Matrix_261ATERF-1Not availableUpstream-311
Upstream-308
Matrix_266TCP16Determinants of the DNA binding specificity of class I and class II TCP transcription factorsUpstream-530
Matrix_272DEAR4Not availableUpstream-308
Matrix_280TCP24;TCP1;BRC2;ATTCP18Not availableUpstream-530
Matrix_281TCP13Not availableUpstream-528
Matrix_287ERF2Not availableUpstream-311
Upstream-308
Matrix_294MEE35Not availableUpstream-528
Matrix_295ERF1Not availableUpstream-308
Matrix_297TCP15Not availableUpstream-532
Upstream-529
Matrix_315MYB111Not availableUpstream-270
Matrix_321HRDNot availableUpstream-308
Matrix_326AT5G07310;Rap2.6L;AT5G61890Not availableUpstream-312
Upstream-309
Matrix_333GATA3Not availableUpstream-286
Matrix_334AT3G23230Not availableUpstream-310
Upstream-307
Matrix_343AT2G33710Not availableUpstream-311
Upstream-308
Matrix_344ATERF15;AT4G18450Not availableUpstream-311
Upstream-308
Matrix_348AT5G51910Not availableUpstream-531
Upstream-530
Matrix_355ERF10;ERF11Not availableUpstream-312
Upstream-309
Matrix_360ORA59Not availableUpstream-308
Matrix_374AT5G07580;AT5G61590Not availableUpstream-311
Upstream-309
Upstream-308
Matrix_377AT1G75490;DREB2C;AT2G40350;AT5G18450Not availableUpstream-311
Upstream-308
Matrix_378ATERF1Not availableUpstream-311
Upstream-308
Matrix_396AP3Not availableUpstream-182
Matrix_40TCP2Not availableUpstream-530
Matrix_406ATERF-7Not availableUpstream-313
Upstream-310
Matrix_409DEAR3Not availableUpstream-309
Matrix_414AGL15Not availableUpstream-270
Upstream-265
Upstream-83
Upstream-78
Matrix_42AT2G45680Not availableUpstream-531
Upstream-530
Matrix_421GLK1Not availableUpstream-286
Matrix_426CRF1;CRF2Not availableUpstream-307
Matrix_433ATERF1Not availableUpstream-312
Matrix_448ATERF6Not availableUpstream-312
Matrix_45DRNNot availableUpstream-311
Upstream-308
Matrix_454AT1G77200;ATERF38;AT4G16750;AT5G52020Not availableUpstream-309
Matrix_462ATERF-8Not availableUpstream-313
Upstream-310
Matrix_473RRTF1Not availableUpstream-311
Upstream-308
Matrix_484ATERF13Not availableUpstream-311
Upstream-308
Matrix_493AT1G22985;AT1G71130Not availableUpstream-311
Upstream-308
Matrix_496ATMYB15Not availableUpstream-270
Matrix_5AT5G51190;ERF104Not availableUpstream-311
Matrix_50ATERF14;AT5G43410Not availableUpstream-312
Upstream-309
Matrix_506DRNL;ATERF-4Not availableUpstream-310
Upstream-307
Matrix_507TCP3Not availableUpstream-529
Matrix_510AtMYB84More than 80 R2R3-MYB regulatory genes in the genome of Arabidopsis thalianaUpstream-270
Matrix_517ERF12Not availableUpstream-308
Matrix_56BZIP17;BZIP28;BZIP49Not availableUpstream-540
Matrix_57WIN1;SHN3;SHN2Not availableUpstream-309
Matrix_74LFYNot availableUpstream-21
Matrix_82TCP17Not availableUpstream-528
Matrix_86CRF5;CRF6;CRF4Not availableUpstream-310
Upstream-307
Matrix_91CRF3Not availableUpstream-311
Upstream-308
Motif_136SEF4MOTIFGM7SSEF4 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)Upstream-1175
Upstream-19
Motif_155NODCON1GMOne 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 nodulesUpstream-351
Motif_168IBOXI 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 geneUpstream-354
Motif_181IBOXCORENTI-box core motif in the CAMs (conserved DNA modular arrays) associated with light-responsive promoter regionsUpstream-355
Motif_192BOXLCOREDCPALConsensus of the putative core sequences of box-L-like sequences in carrot; PAL1 promoter region; DCMYB1 bound to these sequences in vitroUpstream-268
Motif_194EBOXBNNAPAE-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; ICE1Upstream-534
Motif_223LTRE1HVBLT49LTRE-1 (low-temperature-responsive element) in barley (H.v.) blt4.9 gene promoter; A new LTRE; A previously known LTRE is CCGACUpstream-320
Motif_279POLASIG3Plant polyA signal; Consensus sequence for plant polyadenylation signalUpstream-28
Motif_286SEBFCONSSTPR10ABinding site of the potato silencing element binding factor (SEBF) gene found in promoter of pathogenesis-related gene (PR-10a); Located between -45 and -39; Similar to the auxin response elementUpstream-295
Motif_307TATCCAYMOTIFOSRAMY3DTATCCAY 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 repressionUpstream-273
Motif_309GATA promoter motifArabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristicsUpstream-481
Upstream-353
Motif_313ERF1 BS in AtCHI-BCore 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 temperatureUpstream-307
Motif_321TATABOX5TATA box; TATA box found in the 5'upstream region of pea (Pisum sativum) glutamine synthetase gene; a functional TATA element by in vivo analysisUpstream-27
Motif_332SV40COREENHANSV40 core enhancer; Similar sequences found in rbcS genesUpstream-274
Motif_339ABRE-like binding site motifMolecular responses to dehydration and low temperatureUpstream-539
Motif_342POLASIG1PolyA 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 ArabidopsisUpstream-86
Motif_348WBBOXPCWRKY1WB box; WRKY proteins bind specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box; Found in amylase gene in sweet potato, alpha-Amy2 genes in wheat, barley, and wild oat, PR1 gene in parsley, and a transcription factor gene in ArabidopsisUpstream-67
Motif_358UP2ATMSDUp2 motif found in 193 of the 1184 up-regulated genes after main stem decapitation in ArabidopsisUpstream-180
Motif_365ARF1 binding site motifARF (auxin response factor) binding site found in the promoters of primary/early auxin response genes of Arabidopsis thaliana; AuxRE;Binding site of Arabidopsis ARF1 (Auxin response factor1); Sequence found in NDE element in Soybean SAUR (Small Auxin-Up RNA) 15A gene promoter;Found in D1 or D4 element in Soybean GH3 promoter; This element was enriched in the 5'-flanking region of genes up-regulated by both IAA and BL;Dimerization and DNA binding of auxin response factorsUpstream-294
Motif_371DRE-like promoter motifThe Expression Profile Matrix of Arabidopsis Transcription Factor Genes Suggests Their Putative Functions in Response to Environmental StressesUpstream-289
Upstream-280
Motif_391REALPHALGLHCB21REalpha 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 regulationUpstream-22
Motif_399UPRMOTIFIATMotif 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.Upstream-540
Motif_43CCA1 binding site motifCCA1 binding site; CCA1 protein (myb-related transcription factor) interact with two imperfect repeats of AAMAATCT in Lhcb1*3 gene of Arabidopsis thaliana; Related to regulation by phytochrome;A myb-related transcription factor is involved in the phytochrome regulation of an Arabidopsis Lhcb geneUpstream-47
Motif_440TGA1 binding site motifHex motif; Binding site of Arabidopsis bZIP protein TGA1 and G box binding factor GBF1; TGA1 and members of the GBF family differ in their DNA binding properties; G-Box-like element;TGA1 and G-box binding factors: two distinct classes of Arabidopsis leucine zipper proteins compete for the G-box-like element TGACGTGGUpstream-540
Motif_453HEXMOTIFTAH3H4hexamer 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 siteUpstream-538
Motif_503EECCRCAH1EEC; 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 LCR1Upstream-70
Motif_543TATCCACHVAL21TATCCAC 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 responseUpstream-273
Motif_570POLASIG2PolyA signal; poly A signal found in rice alpha-amylase; -10 to -30 in the case of animal genesUpstream-1172
Motif_576TGACGTVMAMYTGACGT motif found in the Vigna mungo alpha-Amylase (Amy) gene promoter; Located between -128 and -123; Required for high level expression of alpha-Amylase in the cotyledons of the germinated seedsUpstream-538
Motif_603SITEIIATCYTCSite 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 riceUpstream-527
Motif_615MARTBOXT-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR)Upstream-63
Motif_618MYB1ATMYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in ArabidopsisUpstream-21
Motif_628TATCCAOSAMYTATCCA 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 AMYBOX2Upstream-273
Motif_645BES1A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thalianaUpstream-534
Motif_658GT1CONSENSUSConsensus 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 expressionUpstream-482
Upstream-361
Upstream-360
Upstream-348
Upstream-39
Upstream-32
Motif_682GT1GMSCAM4GT-1 motif found in the promoter of soybean CaM isoform, SCaM-4; Plays a role in pathogen- and salt-induced SCaM-4 gene expressionUpstream-361
Upstream-348
Upstream-39
Motif_83CIACADIANLELHCRegion necessary for circadian expression of tomato Lhc geneUpstream-50