View conserved binding sites


Gene
PPE_008G22370
Description
Transcription factor PIF1
Alias
ppa004070m.g;ppa004070m;PAC:17646933;ppa004070m
Binding siteNameDescriptionLocationPosition
Matrix_104PINot availableIntron1489
Intron1304
Matrix_113ABI5Not availableIntron1489
Intron1487
Intron1304
Intron1302
Matrix_117ANTNot availableIntron1192
Matrix_122ABF1;AREB2Not availableIntron1488
Intron1339
Intron1303
Matrix_129ABF1Not availableIntron1488
Intron1303
Matrix_145GBF4;AT5G44080Not availableIntron1487
Intron1302
Matrix_15PIF3_1Direct targeting of light signals to a promoter element-bound transcription factorIntron1492
Matrix_162AtPHR1Not availableDownstream4162
Matrix_172BES1A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thalianaUpstream-382
Upstream-383
Matrix_192FHY3/FAR1Not availableIntron1491
Intron1306
Matrix_194HYH;HY5Not availableIntron1491
Intron1306
Matrix_214AP1Not availableIntron1490
Intron1305
Matrix_217BES1A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thalianaIntron1491
Intron1306
Matrix_264ATAREB1Not availableIntron1488
Intron1303
Matrix_270ANTDNA binding properties of the Arabidopsis floral development protein AINTEGUMENTAIntron1193
Matrix_300bZIP68;bZIP16Not availableIntron1488
Intron1303
Matrix_301PIL5Not availableIntron1487
Matrix_338AP2Not availableIntron1491
Intron1306
Matrix_356PRR5Not availableIntron1491
Intron1306
Matrix_359FLCNot availableIntron1490
Matrix_381ATHB9Not availableDownstream3714
Matrix_403BZR1Not availableIntron1490
Intron1305
Matrix_439AP3Not availableUpstream-99
Matrix_443AGL15Not availableIntron1490
Intron1305
Matrix_459ATHB9;CNA;PHB;ATHB-8;REVNot availableDownstream3714
Matrix_468ATHB9The Arabidopsis Athb-8, -9 and -14 genes are members of a small gene family coding for highly related HD-ZIP proteinsDownstream3714
Matrix_48PINot availableUpstream-391
Upstream-392
Matrix_53MYC3Not availableIntron1336
Intron1305
Matrix_55PIF3Not availableIntron1489
Intron1304
Matrix_7PIF4Not availableIntron1488
Intron1303
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 boxUpstream-486
Upstream-550
Motif_129GAGAGMGSA1GAGA element found in the promoter of the heme and chlorophyll synthesis gene Gsa1 in soybean; GAGA binding protein (GBP) binds to (GA)n/(CT)n DNAUpstream-395
Upstream-397
Upstream-399
Upstream-401
Upstream-403
Upstream-405
Upstream-407
Upstream-409
Upstream-411
Upstream-413
Upstream-415
Upstream-417
Upstream-419
Upstream-421
Upstream-1003
Motif_139RHERPATEXPA7Right part of RHEs (Root Hair-specific cis-Elements) conserved among the Arabidopsis thaliana A7 (AtEXPA7) orthologous (and paralogous) genes from diverse angiosperm species with different hair distribution patternsIntron1193
Intron1160
Motif_153MARABOX1A-box found in SAR(scaffold attachment region; or matrix attachment region, MAR)Upstream-753
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-382
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-385
Motif_181IBOXCORENTI-box core motif in the CAMs (conserved DNA modular arrays) associated with light-responsive promoter regionsUpstream-385
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; ICE1Intron1167
Motif_200GBOXLERBCSG box; Conserved sequence upstream of light-regulated genes; Sequence found in the promoter region of rbcS of tomato and Arabidopsis; Binding with GBFIntron1489
Intron1304
Motif_218ABRERATCALABRE-related sequence or Repeated sequence motifs identified in the upstream regions of 162 Ca(2+)-responsive upregulated genes; see also ABREIntron1160
Motif_22RYREPEATLEGUMINBOXRY repeat (CATGCAY) or legumin box found in seed-storage protein genes in legume such as soybeanIntron2687
Motif_254MYB46;MYB83MYB46 and MYB83 bind to the SMRE sites and directly activate a suite of transcription factors and secondary wall biosynthetic genesUpstream-299
Motif_279POLASIG3Plant polyA signal; Consensus sequence for plant polyadenylation signalDownstream3708
Intron2691
Upstream-441
Upstream-444
Motif_285HDZIP2ATATHB2Binding site of the Arabidopsis homeobox gene (ATHB-2) found in its own promoter; Located between -72 and -80; Similar to the HD-ZIP-2 binding consensus sequence; ATHB-2 is regulated by light signals which function as a negative autoregulator of its own geneDownstream3709
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 elementIntron1489
Intron1304
Motif_309GATA promoter motifArabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristicsUpstream-384
Motif_317GAREATGARE (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%, respectivelyDownstream3691
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 analysisIntron2692
Motif_371DRE-like promoter motifThe Expression Profile Matrix of Arabidopsis Transcription Factor Genes Suggests Their Putative Functions in Response to Environmental StressesIntron1185
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 regulationIntron2717
Motif_414ABI3Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene productIntron2688
Motif_441GAGA8HVBKN3GA octodinucleotide repeat found in intron IV of the barley gene Bkn3; Binding site for GAGA-binding factor BBRUpstream-395
Upstream-397
Upstream-399
Upstream-401
Upstream-403
Upstream-405
Upstream-407
Upstream-409
Upstream-411
Upstream-413
Upstream-415
Upstream-417
Upstream-419
Upstream-421
Upstream-423
Upstream-1003
Upstream-1005
Motif_448IRO2OSOsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiencyIntron1488
Intron1303
Motif_454DRECRTCOREATCore 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)Intron1185
Motif_48BES1A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thalianaIntron1194
Intron1161
Motif_484RAV1-B binding site motifBinding consensus sequence of an 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 plantsIntron1167
Motif_51MYB46Identification of a cis-acting regulatory motif recognized by MYB46, a master transcriptional regulator of secondary wall biosynthesisUpstream-299
Motif_511RYREPEATGMGY2RY repeat motif (CATGCAT); Present in the 5' region of the soybean glycinin gene (Gy2)Intron2687
Motif_520AMYBOX1amylase box; Conserved sequence found in 5'-upstream region of alpha-amylase gene of rice, wheat, barleyDownstream3691
Motif_552MRE1MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1Intron1196
Intron1163
Motif_558BOXIIPCCHSCore of Box II/G box found in the parsley chs genes; Essential for light regulationIntron1489
Intron1304
Motif_567T/GBOXATPIN2T/G-box found in tomato proteinase inhibitor II (pin2) and leucine aminopeptidase (LAP) genes; Involved in jasmonate (JA) induction of these genes; bHLH-Leu zipper JAMYC2 and JAMYC10 proteins specifically recognize this motifIntron1159
Motif_57ABREOSRAB21ABA responsive element (ABRE) of wheat Em and rice rab21 genes; Proposed consensus sequence for the repeated motif (Em1a and Em1b) of wheat Em geneIntron1162
Motif_591CBFHVBinding 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)Intron1185
Motif_609AP2The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence elementDownstream3691
Motif_614MYBGAHVCentral 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 repressionDownstream3691
Motif_618MYB1ATMYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in ArabidopsisIntron2716
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 ABREIntron2686
Motif_643DRE2COREZMRAB17DRE2 core found in maize rab17 gene promoter; DBF1 and DBF2 bound to DRE2; rab17 is expressed during late embryogenesis, and is induced by ABAIntron1185
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 expressionIntron1188
Upstream-547
Motif_672AP2The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence elementDownstream3691
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-547
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-395
Upstream-397
Upstream-399
Upstream-401
Upstream-403
Upstream-405
Upstream-407
Upstream-409
Upstream-411
Upstream-413
Upstream-415
Upstream-417
Upstream-419
Upstream-421
Upstream-423
Upstream-425
Upstream-427
Upstream-429
Upstream-1003
Upstream-1005
Upstream-1007
Upstream-1009
Upstream-1011
Upstream-1013
Motif_70CANBNNAPACore of (CA)n element in storage protein genes in Brasica napus; embryo- and endosperm-specific transcription of napin (storage protein) gene, napA; seed specificity; activator and repressorUpstream-304