View conserved binding sites


Gene
GM01G37590
Description
SHI RELATED SEQUENCE
Alias
Glyma01g37590;Glyma01g37590.2;PAC:26325713;Glyma01g37590.2
Binding siteNameDescriptionLocationPosition
Matrix_101ERF5Not availableUpstream-486
Upstream-487
Upstream-1721
Matrix_104PINot availableUpstream-814
Upstream-815
Matrix_109GBF3Not availableUpstream-814
Upstream-816
Matrix_110ATABI4;AT3G57600Not availableUpstream-840
Upstream-1339
Matrix_113ABI5Not availableUpstream-814
Upstream-815
Upstream-816
Upstream-817
Matrix_118PIF3_2Direct targeting of light signals to a promoter element-bound transcription factorUpstream-812
Matrix_119RRTF1Not availableUpstream-487
Upstream-488
Upstream-1341
Upstream-1342
Matrix_120BEE2Not availableUpstream-815
Matrix_122ABF1;AREB2Not availableUpstream-815
Upstream-816
Matrix_129ABF1Not availableUpstream-815
Upstream-816
Matrix_134ABF1Not availableUpstream-815
Upstream-816
Matrix_138RRTF1Not availableUpstream-487
Upstream-488
Upstream-1341
Upstream-1342
Upstream-1722
Matrix_145GBF4;AT5G44080Not availableUpstream-816
Upstream-817
Matrix_146ORA47Not availableUpstream-486
Matrix_147ERF3;AT1G80580Not availableUpstream-488
Upstream-489
Matrix_15PIF3_1Direct targeting of light signals to a promoter element-bound transcription factorUpstream-812
Matrix_154AT1G22190;AT1G36060;AT1G64380;RAP2.4;AT2G20880;AT2G22200;AT4G13620;AT4G28140;AT4G39780;AT5G65130Not availableUpstream-488
Matrix_156POC1Not availableUpstream-814
Upstream-815
Matrix_181Dof5.7Not availableDownstream2282
Matrix_183BES1A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thalianaUpstream-248
Matrix_186FHY3Not availableUpstream-247
Matrix_188SPL4Not availableUpstream-1769
Upstream-1772
Matrix_192FHY3/FAR1Not availableUpstream-812
Upstream-813
Upstream-817
Matrix_194HYH;HY5Not availableUpstream-813
Matrix_200PIL5;AT4G28790;AT4G28800;AT4G28811;AT4G28815Not availableUpstream-815
Upstream-816
Matrix_209RAP2.6Not availableUpstream-488
Matrix_214AP1Not availableUpstream-813
Upstream-814
Matrix_217BES1A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thalianaUpstream-812
Upstream-813
Matrix_224ERF1Not availableUpstream-487
Upstream-488
Matrix_234RAP2.3Not availableUpstream-486
Upstream-487
Upstream-1720
Upstream-1721
Matrix_247PIF3Not availableUpstream-815
Upstream-816
Matrix_252RAP2.6Not availableUpstream-486
Matrix_261ATERF-1Not availableUpstream-487
Upstream-488
Upstream-1722
Matrix_264ATAREB1Not availableUpstream-812
Upstream-813
Upstream-816
Matrix_277RAP2.6Not availableUpstream-487
Upstream-488
Matrix_285DDF1Not availableUpstream-488
Upstream-489
Upstream-1723
Matrix_287ERF2Not availableUpstream-486
Upstream-487
Upstream-1721
Matrix_288RAP2.3Not availableUpstream-487
Upstream-488
Upstream-1341
Upstream-1342
Upstream-1722
Matrix_295ERF1Not availableUpstream-488
Upstream-489
Matrix_296GBF2Not availableUpstream-815
Upstream-816
Matrix_300bZIP68;bZIP16Not availableUpstream-815
Upstream-816
Upstream-817
Matrix_301PIL5Not availableUpstream-817
Matrix_307RGL2;RGL3Not availableUpstream-1769
Matrix_326AT5G07310;Rap2.6L;AT5G61890Not availableUpstream-487
Upstream-488
Upstream-1722
Matrix_331GBF1Not availableUpstream-814
Upstream-815
Upstream-816
Upstream-817
Matrix_332SPT;ALCNot availableUpstream-815
Upstream-816
Matrix_334AT3G23230Not availableUpstream-487
Upstream-488
Upstream-1722
Matrix_338AP2Not availableUpstream-813
Matrix_339bHLH104Not availableUpstream-815
Matrix_343AT2G33710Not availableUpstream-486
Upstream-487
Upstream-1721
Matrix_355ERF10;ERF11Not availableUpstream-487
Upstream-488
Upstream-1722
Matrix_356PRR5Not availableUpstream-809
Upstream-813
Matrix_360ORA59Not availableUpstream-488
Upstream-489
Matrix_363RAP2.3Not availableUpstream-487
Upstream-488
Upstream-1341
Upstream-1342
Matrix_374AT5G07580;AT5G61590Not availableUpstream-487
Matrix_377AT1G75490;DREB2C;AT2G40350;AT5G18450Not availableDownstream2226
Upstream-487
Matrix_378ATERF1Not availableUpstream-486
Upstream-487
Upstream-1340
Upstream-1341
Upstream-1721
Matrix_388SNZ;SMZ;TOE2Not availableUpstream-847
Upstream-848
Matrix_389ILR3Not availableUpstream-815
Upstream-816
Matrix_403BZR1Not availableUpstream-813
Upstream-814
Matrix_405DREB2CNot availableUpstream-388
Matrix_406ATERF-7Not availableUpstream-488
Upstream-489
Matrix_409DEAR3Not availableUpstream-487
Matrix_41anac058Not availableIntron844
Intron843
Matrix_414AGL15Not availableUpstream-617
Upstream-708
Matrix_420ANAC58Not availableIntron845
Intron844
Matrix_426CRF1;CRF2Not availableUpstream-487
Upstream-488
Matrix_443AGL15Not availableUpstream-813
Upstream-814
Matrix_45DRNNot availableUpstream-488
Upstream-489
Matrix_462ATERF-8Not availableUpstream-488
Upstream-489
Upstream-1723
Matrix_472ZN_C2_H2Not availableUpstream-388
Matrix_473RRTF1Not availableUpstream-486
Upstream-487
Upstream-1340
Upstream-1341
Upstream-1721
Matrix_48PINot availableDownstream2283
Matrix_480BES1Not availableUpstream-814
Upstream-815
Matrix_484ATERF13Not availableUpstream-488
Upstream-489
Matrix_488ABF1Not availableUpstream-807
Upstream-808
Upstream-815
Matrix_493AT1G22985;AT1G71130Not availableUpstream-487
Upstream-488
Upstream-1722
Matrix_50ATERF14;AT5G43410Not availableUpstream-487
Upstream-488
Matrix_506DRNL;ATERF-4Not availableUpstream-487
Upstream-488
Matrix_517ERF12Not availableUpstream-488
Upstream-489
Upstream-1720
Matrix_55PIF3Not availableUpstream-814
Upstream-815
Matrix_57WIN1;SHN3;SHN2Not availableUpstream-487
Upstream-488
Matrix_60AT1G01260;AT5G57150Not availableUpstream-816
Matrix_65POC1;PIL1Not availableUpstream-816
Matrix_7PIF4Not availableUpstream-815
Upstream-816
Upstream-817
Upstream-818
Matrix_77PRR5Not availableUpstream-814
Upstream-815
Matrix_86CRF5;CRF6;CRF4Not availableUpstream-487
Upstream-488
Upstream-1722
Matrix_91CRF3Not availableUpstream-487
Upstream-488
Upstream-1722
Motif_104CAREOSREP1CAREs (CAACTC regulatory elements) found in the promoter region of a cystein proteinase (REP-1) gene in riceUpstream-400
Motif_116INRNTPSADBInr (initiator) elements found in the tobacco psaDb gene promoter without TATA boxes; Light-responsive transcription of psaDb depends on Inr, but not TATA boxIntron959
Upstream-403
Motif_145MYCATERD1MYC recognition sequence (from -466 to -461) necessary for expression of erd1 (early responsive to dehydration) in dehydrated Arabidopsis; NAC protein bound specifically to the CATGTG motif; NAC protein bound specifically to the CATGTG motifDownstream2395
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 nodulesDownstream2266
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-807
Motif_174SREATMSDsugar-repressive element (SRE) found in 272 of the 1592 down-regulated genes after main stem decapitation in ArabidopsisDownstream2100
Motif_179CACGTGMOTIF;BES1;PIF4;PIF5Phytochrome 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 responsesUpstream-817
Motif_181IBOXCORENTI-box core motif in the CAMs (conserved DNA modular arrays) associated with light-responsive promoter regionsUpstream-806
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; ICE1Downstream2395
Downstream2239
Upstream-817
Motif_200GBOXLERBCSG box; Conserved sequence upstream of light-regulated genes; Sequence found in the promoter region of rbcS of tomato and Arabidopsis; Binding with GBFUpstream-815
Motif_210REBETALGLHCB21REbeta 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 regulationDownstream2101
Motif_218ABRERATCALABRE-related sequence or Repeated sequence motifs identified in the upstream regions of 162 Ca(2+)-responsive upregulated genes; see also ABREUpstream-250
Upstream-816
Upstream-817
Motif_22RYREPEATLEGUMINBOXRY repeat (CATGCAY) or legumin box found in seed-storage protein genes in legume such as soybeanDownstream2236
Motif_235C8GCARGATBinding site of plant MADS-domain protein AGL15; CArG motif with a longer A/T-rich core;A variant of CArG motif, with a longer A/T-rich core; Binding site for AGL15 (AGAMOUS-like 15)Upstream-526
Motif_244ABRE-like binding site motifNot availableUpstream-815
Upstream-817
Motif_249DPBF1&2 binding site motifA novel class of bZIP transcription factors, DPBF-1 and 2 (Dc3 promoter-binding factor-1 and 2) binding core sequence; Found in the carrot Dc3 gene promoter; Dc3 expression is normally embryo-specific, and also can be induced by ABA; The Arabidopsis abscisic acid response gene ABI5 encodes a bZIP transcription factor; abi5 mutant have a pleiotropic defects in ABA response; ABI5 regulates a subset of late embryogenesis-abundant genes; GIA1 (growth-insensitivity to ABA) is identical to ABI5; Isolation of a novel class of bZIP transcription factors that interact with ABA-responsive and embryo-specification elements in the Dc3 promoter using a modified yeast one-hybrid systemUpstream-251
Upstream-253
Upstream-817
Motif_258-10PEHVPSBD-10 promoter element found in the barley (H.v.) chloroplast psbD gene promoter; Involved in the expression of the plastid gene psbD which encodes a photosystem II reaction center chlorophyll-binding protein that is activated by blue, white or UV-A lightUpstream-955
Motif_278CELLCYCLESCcell cycle box found in URS2 (-940/-200) of HO gene of S.cerevisiae; cell-cycle-specific activation of transcriptionDownstream2093
Motif_279POLASIG3Plant polyA signal; Consensus sequence for plant polyadenylation signalUpstream-972
Upstream-1546
Motif_291ABFs binding site motifBinding 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 elementUpstream-815
Motif_292MYBPZMCore 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 genesDownstream2230
Upstream-858
Motif_305SP1SV40SP-1 binding site (GC box) in enhancer regions of SV40 and human metallothionein IIA (hMT IIA)Downstream2223
Motif_309GATA promoter motifArabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristicsUpstream-808
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-489
Motif_314HY5ATG box; Binding site of Arabidopsis bZIP protein HY5; HY5 is constitutively nuclear localized and is involved in light regulation of transcriptional activity of the promoters containing the G-box;HY5 abundance peaks in early seedling development, consistent with its role in promoting photomorphogenesis; HY5 stability and activity is regulated by phosphorylation in its COP1 binding domain; HY5 regulates stimulus-induced development of root and hypocotylUpstream-814
Motif_318CGCGBOXATCGCG box recognized by AtSR1-6 (Arabidopsis thaliana signal-responsive genes); Multiple CGCG elements are found in promoters of many genes; Ca2+/calmodulin binds to all AtSRsUpstream-250
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-973
Upstream-1545
Motif_339ABRE-like binding site motifMolecular responses to dehydration and low temperatureUpstream-817
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-953
Upstream-1232
Motif_382CATATGGMSAURSequence found in NDE element in soybean SAUR (Small Auxin-Up RNA) 15A gene promoter; Involved in auxin responsivenessDownstream2239
Motif_437ANAERO2CONSENSUSOne of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1)Upstream-391
Upstream-873
Motif_447AtMYC2 BS in RD22;PIF4Binding 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 responsesDownstream2395
Motif_448IRO2OSOsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiencyUpstream-816
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 siteDownstream2339
Motif_469QELEMENTZMZM13Q(quantitative)-element in maize ZM13 gene promoter; Found at -107 to -102; Involved in expression enhancing activity; ZM13 is a maize homolog of tomato LAT52 gene; ZM13 is a pollen-specific maize geneUpstream-496
Motif_48BES1A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thalianaIntron845
Upstream-253
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-32
Motif_511RYREPEATGMGY2RY repeat motif (CATGCAT); Present in the 5' region of the soybean glycinin gene (Gy2)Downstream2236
Motif_530CPBCSPORThe sequence critical for Cytokinin-enhanced Protein Binding in vitro, found in -490 to -340 of the promoter of the cucumber POR (NADPH-protochlorophyllide reductase) geneUpstream-961
Motif_542ABI5;AtMYC2;HY5A basic helix-loop-helix transcription factor in Arabidopsis, MYC2, acts as a repressor of blue light-mediated photomorphogenic growth. Arabidopsis bZIP protein HY5 directly interacts with light-responsive promoters in mediating light control of gene expression. The homologous ABI5 and EEL transcription factors function antagonistically to fine-tune gene expression during late embryogenesisUpstream-815
Motif_544CACGCAATGMGH3Sequence found in D4 element in Soybean GH3 gene promoter; Showed constitutive activity with TGTCTC element; Confers auxin inducibility; Binding site of nuclear proteinIntron843
Motif_552MRE1MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1Upstream-841
Motif_558BOXIIPCCHSCore of Box II/G box found in the parsley chs genes; Essential for light regulationUpstream-815
Motif_563PYRIMIDINEBOXOSRAMY1APyrimidine box found in rice alpha-amylase (RAmy1A) gene; Gibberellin-respons cis-element of GARE and pyrimidine box are partially involved in sugar repression; Found in the promoter of barley alpha-amylase (Amy2/32b) gene which is induced in the aleurone layers in response to GA; BPBF protein binds specifically to this siteUpstream-715
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 seedsDownstream2339
Motif_585ATB2/AtbZIP53/AtbZIP44/GBF5 BS in ProDHPRE (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 ArabidopsisUpstream-402
Motif_627ACGTABREMOTIFA2OSEMExperimentally determined sequence requirement of ACGT-core of motif A in ABRE of the rice gene, OSEM; DRE and ABRE are interdependent in the ABA-responsive expression of the rd29A in ArabidopsisUpstream-815
Upstream-818
Motif_638ABRE binding site motifNot availableUpstream-815
Motif_640RYREPEATBNNAPARY 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 ABREDownstream2397
Downstream2235
Motif_641LRENPCABELRE; A positive light regulatory element in tobacco CAB (cab-E) gene; Located at -241Upstream-814
Motif_642SEF1MOTIFSEF1 (soybean embryo factor 1) binding motif; sequence found in 5'-upstream region (-640; -765) of soybean beta-conglicinin (7S globulin) geneUpstream-950
Motif_65BS1EGCCRBS1 (binding site 1) found in E. gunnii Cinnamoyl-CoA reductase (CCR) gene promoter; nuclear protein binding site; Required for vascular expressionUpstream-870
Motif_653INTRONLOWER3' intron-exon splice junctions; Plant intron lower sequence; Consensus sequence for plant intronsDownstream2399
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 expressionDownstream2358
Downstream2099
Downstream2090
Upstream-32
Upstream-471
Upstream-864
Motif_667TATABOXOSPALBinding 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 promoterUpstream-1543
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 expressionDownstream2090
Motif_69CTRMCAMV35SCT-rich motif (inverted GAGA) found in a 60-nucleotide region (S1) downstream of the transcription start site of the CaMV 35S RNA; Can enhance gene expression; Inverted GAGAUpstream-561
Upstream-563
Upstream-704
Motif_72GADOWNATSequence present in 24 genes in the GA-down regulated d1 cluster (106 genes) found in Arabidopsis seed germination; This motif is similar to ABREUpstream-818
Motif_85SORLIP5ATone of Sequences Over-Represented in Light-Induced Promoters (SORLIPs) in Arabidopsis; Computationally identified phyA-induced motifs; Over-represented in both light-induced cotyledon-specific and root-specific genes; Identification of key promoter motifs involved in the network of light-regulated gene expression by combined analysis of genomic sequence and microarray dataIntron958
Motif_92ABREATRD22ABRE (ABA responsive element) in Arabidopsis dehydration-responsive gene rd22Upstream-814