Matrix_104 | PI | Not available | Upstream | -714 |
| | | Upstream | -715 |
| | | Upstream | -922 |
Matrix_113 | ABI5 | Not available | Upstream | -716 |
| | | Upstream | -717 |
| | | Upstream | -922 |
Matrix_119 | RRTF1 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_122 | ABF1;AREB2 | Not available | Upstream | -715 |
| | | Upstream | -716 |
| | | Upstream | -923 |
Matrix_129 | ABF1 | Not available | Upstream | -715 |
| | | Upstream | -716 |
| | | Upstream | -923 |
Matrix_134 | ABF1 | Not available | Upstream | -715 |
| | | Upstream | -716 |
| | | Upstream | -923 |
Matrix_138 | RRTF1 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_145 | GBF4;AT5G44080 | Not available | Upstream | -716 |
| | | Upstream | -717 |
| | | Upstream | -924 |
Matrix_147 | ERF3;AT1G80580 | Not available | Upstream | -360 |
| | | Upstream | -361 |
Matrix_19 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -923 |
Matrix_192 | FHY3/FAR1 | Not available | Upstream | -716 |
| | | Upstream | -717 |
| | | Upstream | -920 |
Matrix_194 | HYH;HY5 | Not available | Upstream | -712 |
| | | Upstream | -713 |
Matrix_214 | AP1 | Not available | Upstream | -713 |
| | | Upstream | -714 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -920 |
Matrix_224 | ERF1 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_227 | AT1G64620 | Not available | Downstream | 2135 |
Matrix_234 | RAP2.3 | Not available | Upstream | -358 |
| | | Upstream | -359 |
Matrix_251 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -712 |
| | | Upstream | -713 |
Matrix_261 | ATERF-1 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_264 | ATAREB1 | Not available | Upstream | -715 |
| | | Upstream | -716 |
| | | Upstream | -920 |
Matrix_288 | RAP2.3 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_295 | ERF1 | Not available | Upstream | -360 |
| | | Upstream | -361 |
Matrix_296 | GBF2 | Not available | Upstream | -716 |
| | | Upstream | -717 |
Matrix_300 | bZIP68;bZIP16 | Not available | Upstream | -716 |
| | | Upstream | -717 |
| | | Upstream | -923 |
Matrix_301 | PIL5 | Not available | Upstream | -716 |
| | | Upstream | -717 |
| | | Upstream | -918 |
Matrix_326 | AT5G07310;Rap2.6L;AT5G61890 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_332 | SPT;ALC | Not available | Upstream | -923 |
Matrix_338 | AP2 | Not available | Upstream | -712 |
| | | Upstream | -713 |
| | | Upstream | -920 |
Matrix_355 | ERF10;ERF11 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_356 | PRR5 | Not available | Upstream | -708 |
| | | Upstream | -709 |
| | | Upstream | -916 |
Matrix_360 | ORA59 | Not available | Upstream | -360 |
| | | Upstream | -361 |
Matrix_363 | RAP2.3 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_372 | ANAC81 | DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus | Intron | 1045 |
| | | Intron | 1037 |
Matrix_378 | ATERF1 | Not available | Upstream | -358 |
| | | Upstream | -359 |
Matrix_401 | MYB55 | Not available | Upstream | -694 |
Matrix_403 | BZR1 | Not available | Upstream | -713 |
| | | Upstream | -714 |
| | | Upstream | -921 |
Matrix_406 | ATERF-7 | Not available | Upstream | -360 |
| | | Upstream | -361 |
Matrix_420 | ANAC58 | Not available | Intron | 967 |
| | | Intron | 966 |
Matrix_426 | CRF1;CRF2 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_443 | AGL15 | Not available | Upstream | -713 |
| | | Upstream | -714 |
| | | Upstream | -921 |
Matrix_45 | DRN | Not available | Upstream | -360 |
| | | Upstream | -361 |
Matrix_453 | EIL3 | Not available | Upstream | -660 |
Matrix_462 | ATERF-8 | Not available | Upstream | -360 |
| | | Upstream | -361 |
Matrix_463 | HAT3.1 | Not available | Upstream | -374 |
| | | Upstream | -375 |
Matrix_473 | RRTF1 | Not available | Upstream | -358 |
| | | Upstream | -359 |
Matrix_480 | BES1 | Not available | Upstream | -922 |
Matrix_484 | ATERF13 | Not available | Upstream | -360 |
| | | Upstream | -361 |
Matrix_493 | AT1G22985;AT1G71130 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_50 | ATERF14;AT5G43410 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_501 | DAG2 | Not available | Upstream | -773 |
Matrix_506 | DRNL;ATERF-4 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_517 | ERF12 | Not available | Upstream | -360 |
| | | Upstream | -361 |
Matrix_55 | PIF3 | Not available | Upstream | -922 |
Matrix_7 | PIF4 | Not available | Upstream | -923 |
Matrix_77 | PRR5 | Not available | Upstream | -714 |
| | | Upstream | -715 |
Matrix_86 | CRF5;CRF6;CRF4 | Not available | Upstream | -359 |
| | | Upstream | -360 |
Matrix_91 | CRF3 | Not available | Upstream | -359 |
| | | Upstream | -360 |
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 | Downstream | 2197 |
| | | Downstream | 2195 |
| | | Upstream | -410 |
Motif_116 | INRNTPSADB | Inr (initiator) elements found in the tobacco psaDb gene promoter without TATA boxes; Light-responsive transcription of psaDb depends on Inr, but not TATA box | Downstream | 1828 |
| | | Intron | 1044 |
| | | Upstream | -13 |
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 | Downstream | 2585 |
Motif_129 | GAGAGMGSA1 | GAGA 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 DNA | Downstream | 2417 |
| | | Downstream | 2415 |
| | | Upstream | -479 |
| | | Upstream | -481 |
| | | Upstream | -483 |
| | | Upstream | -485 |
| | | Upstream | -487 |
| | | Upstream | -489 |
| | | Upstream | -491 |
| | | Upstream | -493 |
| | | Upstream | -495 |
| | | Upstream | -497 |
| | | Upstream | -499 |
| | | Upstream | -501 |
| | | Upstream | -503 |
| | | Upstream | -505 |
| | | Upstream | -507 |
Motif_15 | AMYBOX2 | amylase box; amylase element; Conserved sequence found in 5'upstream region of alpha-amylase gene of rice, wheat, barley | Downstream | 2499 |
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 | Downstream | 2546 |
| | | Downstream | 2509 |
Motif_174 | SREATMSD | sugar-repressive element (SRE) found in 272 of the 1592 down-regulated genes after main stem decapitation in Arabidopsis | Downstream | 2500 |
| | | Downstream | 2145 |
Motif_179 | CACGTGMOTIF;BES1;PIF4;PIF5 | Phytochrome 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 responses | Upstream | -717 |
| | | Upstream | -924 |
Motif_182 | MYB2CONSENSUSAT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis; see MYB2 and MYBATRD22 | Upstream | -699 |
Motif_193 | GLK1 | GLK transcription factors coordinate expression of the photosynthetic apparatus in Arabidopsis | Upstream | -786 |
Motif_194 | EBOXBNNAPA | E-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; ICE1 | Upstream | -524 |
| | | Upstream | -717 |
Motif_200 | GBOXLERBCS | G box; Conserved sequence upstream of light-regulated genes; Sequence found in the promoter region of rbcS of tomato and Arabidopsis; Binding with GBF | Upstream | -922 |
Motif_210 | REBETALGLHCB21 | REbeta 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 regulation | Downstream | 2146 |
Motif_218 | ABRERATCAL | ABRE-related sequence or Repeated sequence motifs identified in the upstream regions of 162 Ca(2+)-responsive upregulated genes; see also ABRE | Upstream | -716 |
| | | Upstream | -717 |
| | | Upstream | -923 |
| | | Upstream | -924 |
Motif_22 | RYREPEATLEGUMINBOX | RY repeat (CATGCAY) or legumin box found in seed-storage protein genes in legume such as soybean | Downstream | 2345 |
| | | Downstream | 1709 |
Motif_221 | MYBCORE | Binding site for all animal MYB and at least two plant MYB proteins ATMYB1 and ATMYB2, both isolated from Arabidopsis; ATMYB2 is involved in regulation of genes that are responsive to water stress in Arabidopsis; A petunia MYB protein (MYB.Ph3) is involved in regulation of flavonoid biosynthesis | Upstream | -699 |
Motif_235 | C8GCARGAT | Binding 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) | Downstream | 2550 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -715 |
| | | Upstream | -717 |
| | | Upstream | -922 |
Motif_249 | DPBF1&2 binding site motif | A 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 system | Upstream | -717 |
Motif_254 | MYB46;MYB83 | MYB46 and MYB83 bind to the SMRE sites and directly activate a suite of transcription factors and secondary wall biosynthetic genes | Downstream | 2192 |
| | | Downstream | 1809 |
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 light | Intron | 1050 |
Motif_261 | S1FBOXSORPS1L21 | S1F box conserved both in spinach RPS1 and RPL21 genes encoding the plastid ribosomal protein S1 and L21, respectively; Negative element; Might play a role in downregulating RPS1 and RPL21 promoter activity | Downstream | 2589 |
Motif_291 | ABFs binding site motif | Binding 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 element | Upstream | -922 |
Motif_305 | SP1SV40 | SP-1 binding site (GC box) in enhancer regions of SV40 and human metallothionein IIA (hMT IIA) | Downstream | 2305 |
Motif_307 | TATCCAYMOTIFOSRAMY3D | TATCCAY 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 repression | Downstream | 2499 |
Motif_313 | ERF1 BS in AtCHI-B | Core 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 temperature | Upstream | -361 |
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 | Intron | 1064 |
Motif_332 | SV40COREENHAN | SV40 core enhancer; Similar sequences found in rbcS genes | Upstream | -673 |
| | | Upstream | -769 |
Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Upstream | -699 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -717 |
| | | Upstream | -924 |
Motif_342 | POLASIG1 | 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 | Downstream | 1846 |
Motif_346 | SND1;VND6;VND7;NST1;NST2 | Global analysis of direct targets of secondary wall NAC master switches in Arabidopsis | Intron | 705 |
Motif_347 | OPAQUE2ZMB32 | opaque-2 binding site of maize b-32 (type I ribosome-inactivating protein gene); O2; O2S; O2S and GARE form a gibberellin response complex (GARC) | Upstream | -32 |
Motif_382 | CATATGGMSAUR | Sequence found in NDE element in soybean SAUR (Small Auxin-Up RNA) 15A gene promoter; Involved in auxin responsiveness | Upstream | -524 |
Motif_383 | UPRE-III(bZIP60) | The plant-specific transcription factor NAC103 is induced by bZIP60 through a new cis-regulatory element to modulate the unfolded protein response in Arabidopsis | Downstream | 1872 |
| | | Upstream | -669 |
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 | Downstream | 2199 |
| | | Downstream | 2193 |
| | | Downstream | 1810 |
Motif_392 | PALBOXAPC | Box A; Consensus; One of three putative cis-acting elements (boxes P, A, and L) of phenylalanine ammonia-lyase (PAL; EC 4.3.1.5) genes in parsley (P.c.); None of these elements (boxes P, A, and L) alone, or the promoter region containing all of them together, conferred elicitor or light responsiveness. These elements appear to be necessary but not sufficient for elicitor- or light-mediated PAL gene activation; See also Box P, Box L | Upstream | -430 |
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 | Intron | 1063 |
Motif_414 | ABI3 | Gene regulation during late embryogenesis: the RY motif of maturation-specific gene promoters is a direct target of the FUS3 gene product | Downstream | 2346 |
Motif_419 | MYB4 binding site motif | Not available | Downstream | 2192 |
| | | Downstream | 1809 |
| | | Intron | 1063 |
Motif_43 | CCA1 binding site motif | CCA1 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 gene | Upstream | -802 |
Motif_441 | GAGA8HVBKN3 | GA octodinucleotide repeat found in intron IV of the barley gene Bkn3; Binding site for GAGA-binding factor BBR | Downstream | 2417 |
| | | Downstream | 2415 |
| | | Downstream | 2413 |
| | | Upstream | -479 |
| | | Upstream | -481 |
| | | Upstream | -483 |
| | | Upstream | -485 |
| | | Upstream | -487 |
| | | Upstream | -489 |
| | | Upstream | -491 |
| | | Upstream | -493 |
| | | Upstream | -495 |
| | | Upstream | -497 |
| | | Upstream | -499 |
| | | Upstream | -501 |
| | | Upstream | -503 |
| | | Upstream | -505 |
| | | Upstream | -507 |
| | | Upstream | -509 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -716 |
| | | Upstream | -923 |
Motif_469 | QELEMENTZMZM13 | Q(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 gene | Upstream | -9 |
Motif_48 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Intron | 967 |
Motif_498 | SGBFGMGMAUX28 | bZIP proteins SGBF-1 and SGBF-2 binding site in soybean GmAux28 gene promoter | Upstream | -715 |
Motif_503 | EECCRCAH1 | EEC; 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 LCR1 | Downstream | 1823 |
| | | Intron | 975 |
Motif_511 | RYREPEATGMGY2 | RY repeat motif (CATGCAT); Present in the 5' region of the soybean glycinin gene (Gy2) | Downstream | 2345 |
Motif_520 | AMYBOX1 | amylase box; Conserved sequence found in 5'-upstream region of alpha-amylase gene of rice, wheat, barley | Intron | 1064 |
Motif_552 | MRE1 | MRE (metal responsive element); Consensus sequence of MRE; MRE; MEP-1; MBF-1; MTF-1 | Downstream | 1711 |
| | | Upstream | -375 |
| | | Upstream | -917 |
Motif_556 | INTRONUPPER | 5' exon-intron splice junctions of plant introns; Plant intron upper sequence; Consensus sequence for plant introns | Downstream | 2532 |
Motif_558 | BOXIIPCCHS | Core of Box II/G box found in the parsley chs genes; Essential for light regulation | Upstream | -922 |
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 | Downstream | 2508 |
Motif_584 | UPRE-III(bZIP60) | The plant-specific transcription factor NAC103 is induced by bZIP60 through a new cis-regulatory element to modulate the unfolded protein response in Arabidopsis | Downstream | 1872 |
| | | Upstream | -669 |
Motif_609 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Downstream | 1815 |
| | | Intron | 1063 |
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 | Intron | 1064 |
Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Upstream | -1964 |
| | | Upstream | -1965 |
| | | Upstream | -1966 |
| | | Upstream | -1967 |
| | | Upstream | -1968 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Downstream | 2198 |
| | | Downstream | 2194 |
| | | Downstream | 1811 |
Motif_627 | ACGTABREMOTIFA2OSEM | Experimentally 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 Arabidopsis | Upstream | -718 |
| | | Upstream | -922 |
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 | Downstream | 2499 |
Motif_630 | WBOXNTCHN48 | W box identified in the region between -125 and -69 of a tobacco class I basic chitinase gene CHN48; NtWRKY1, NtWRKY2 and NtWRKY4 bound to W box; NtWRKYs possibly involved in elicitor-respsonsive transcription of defense genes in tobacco | Upstream | -560 |
| | | Upstream | -782 |
Motif_638 | ABRE binding site motif | Not available | Upstream | -922 |
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 | Downstream | 2344 |
| | | Downstream | 1708 |
Motif_649 | 2SSEEDPROTBANAPA | Conserved in many storage-protein gene promoters; May be important for high activity of the napA promoter | Downstream | 2190 |
Motif_65 | BS1EGCCR | BS1 (binding site 1) found in E. gunnii Cinnamoyl-CoA reductase (CCR) gene promoter; nuclear protein binding site; Required for vascular expression | Upstream | -765 |
Motif_653 | INTRONLOWER | 3' intron-exon splice junctions; Plant intron lower sequence; Consensus sequence for plant introns | Downstream | 2534 |
| | | Upstream | -353 |
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 | Downstream | 2501 |
| | | Downstream | 2494 |
| | | Downstream | 2349 |
| | | Downstream | 2166 |
| | | Downstream | 2144 |
| | | Downstream | 2136 |
| | | Downstream | 2135 |
| | | Upstream | -759 |
| | | Upstream | -777 |
Motif_666 | MYB binding site promoter | A flower-specific Myb protein activates transcription of phenylpropanoid biosynthetic genes | Downstream | 2193 |
| | | Downstream | 1810 |
Motif_672 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Downstream | 1815 |
| | | Intron | 1063 |
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 | Downstream | 2135 |
| | | Upstream | -777 |
Motif_69 | CTRMCAMV35S | CT-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 GAGA | Downstream | 2418 |
| | | Downstream | 2416 |
| | | Downstream | 2414 |
| | | Downstream | 2412 |
| | | Downstream | 2410 |
| | | Downstream | 2408 |
| | | Downstream | 2406 |
| | | Upstream | -479 |
| | | Upstream | -481 |
| | | Upstream | -483 |
| | | Upstream | -485 |
| | | Upstream | -487 |
| | | Upstream | -489 |
| | | Upstream | -491 |
| | | Upstream | -493 |
| | | Upstream | -495 |
| | | Upstream | -497 |
| | | Upstream | -499 |
| | | Upstream | -501 |
| | | Upstream | -503 |
| | | Upstream | -505 |
| | | Upstream | -507 |
| | | Upstream | -509 |
| | | Upstream | -511 |
| | | Upstream | -513 |
| | | Upstream | -515 |
Motif_70 | CANBNNAPA | Core 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 repressor | Downstream | 2190 |
Motif_72 | GADOWNAT | Sequence present in 24 genes in the GA-down regulated d1 cluster (106 genes) found in Arabidopsis seed germination; This motif is similar to ABRE | Upstream | -718 |
Motif_85 | SORLIP5AT | one 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 data | Upstream | -269 |
| | | Upstream | -546 |
| | | Upstream | -591 |