Matrix_104 | PI | Not available | Intron | 1320 |
| | | Intron | 842 |
| | | Intron | 769 |
| | | Upstream | -101 |
| | | Upstream | -102 |
Matrix_109 | GBF3 | Not available | Upstream | -383 |
Matrix_111 | ABF3 | Not available | Intron | 840 |
| | | Upstream | -103 |
| | | Upstream | -104 |
Matrix_113 | ABI5 | Not available | Intron | 1318 |
| | | Intron | 840 |
| | | Intron | 767 |
| | | Upstream | -101 |
| | | Upstream | -102 |
Matrix_118 | PIF3_2 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -381 |
| | | Upstream | -1601 |
Matrix_122 | ABF1;AREB2 | Not available | Intron | 1319 |
| | | Intron | 769 |
| | | Upstream | -101 |
| | | Upstream | -102 |
| | | Upstream | -1604 |
Matrix_129 | ABF1 | Not available | Intron | 1319 |
| | | Intron | 768 |
| | | Upstream | -102 |
| | | Upstream | -103 |
| | | Upstream | -1605 |
Matrix_134 | ABF1 | Not available | Upstream | -102 |
| | | Upstream | -103 |
| | | Upstream | -1606 |
Matrix_145 | GBF4;AT5G44080 | Not available | Intron | 1318 |
| | | Intron | 767 |
| | | Upstream | -1606 |
Matrix_15 | PIF3_1 | Direct targeting of light signals to a promoter element-bound transcription factor | Upstream | -224 |
Matrix_156 | POC1 | Not available | Upstream | -1606 |
Matrix_192 | FHY3/FAR1 | Not available | Intron | 1318 |
| | | Intron | 840 |
| | | Intron | 767 |
| | | Upstream | -99 |
| | | Upstream | -100 |
Matrix_194 | HYH;HY5 | Not available | Intron | 1322 |
| | | Intron | 844 |
| | | Upstream | -99 |
| | | Upstream | -100 |
| | | Upstream | -381 |
Matrix_214 | AP1 | Not available | Intron | 1321 |
| | | Intron | 843 |
Matrix_217 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Intron | 1318 |
| | | Intron | 767 |
| | | Upstream | -99 |
| | | Upstream | -100 |
Matrix_232 | TCP23 | Not available | Upstream | -410 |
Matrix_24 | POC1 | Not available | Upstream | -224 |
| | | Upstream | -380 |
Matrix_247 | PIF3 | Not available | Upstream | -384 |
Matrix_251 | PIF5 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Upstream | -224 |
| | | Upstream | -225 |
Matrix_264 | ATAREB1 | Not available | Intron | 1319 |
| | | Intron | 841 |
| | | Upstream | -99 |
| | | Upstream | -100 |
| | | Upstream | -102 |
| | | Upstream | -103 |
| | | Upstream | -1602 |
Matrix_281 | TCP13 | Not available | Intron | 4632 |
Matrix_296 | GBF2 | Not available | Upstream | -384 |
| | | Upstream | -385 |
Matrix_297 | TCP15 | Not available | Intron | 3883 |
| | | Upstream | -410 |
Matrix_300 | bZIP68;bZIP16 | Not available | Intron | 1319 |
| | | Intron | 1318 |
| | | Intron | 767 |
| | | Upstream | -384 |
| | | Upstream | -385 |
Matrix_301 | PIL5 | Not available | Upstream | -97 |
| | | Upstream | -98 |
| | | Upstream | -229 |
| | | Upstream | -379 |
| | | Upstream | -1600 |
Matrix_332 | SPT;ALC | Not available | Upstream | -1606 |
Matrix_338 | AP2 | Not available | Intron | 1322 |
| | | Intron | 844 |
| | | Upstream | -99 |
| | | Upstream | -100 |
| | | Upstream | -1309 |
Matrix_34 | RAV1_2 | RAV1, a novel DNA-binding protein, binds to bipartite recognition sequence through two distinct DNA-binding domains uniquely found in higher plants | Upstream | -227 |
Matrix_345 | POC1 | Not available | Upstream | -381 |
Matrix_356 | PRR5 | Not available | Intron | 1326 |
| | | Intron | 848 |
| | | Upstream | -95 |
| | | Upstream | -96 |
| | | Upstream | -100 |
| | | Upstream | -1602 |
Matrix_403 | BZR1 | Not available | Intron | 1321 |
| | | Intron | 770 |
| | | Upstream | -100 |
| | | Upstream | -101 |
| | | Upstream | -1603 |
Matrix_414 | AGL15 | Not available | Upstream | -79 |
| | | Upstream | -80 |
Matrix_42 | AT2G45680 | Not available | Upstream | -409 |
Matrix_438 | AtbZIP63 | Not available | Upstream | -323 |
Matrix_443 | AGL15 | Not available | Intron | 1321 |
| | | Intron | 843 |
| | | Intron | 770 |
| | | Upstream | -100 |
| | | Upstream | -101 |
Matrix_467 | RAV1 | Not available | Upstream | -227 |
Matrix_477 | RAV1 | Not available | Upstream | -227 |
Matrix_48 | PI | Not available | Upstream | -85 |
Matrix_480 | BES1 | Not available | Upstream | -101 |
| | | Upstream | -102 |
Matrix_488 | ABF1 | Not available | Upstream | -219 |
| | | Upstream | -220 |
Matrix_53 | MYC3 | Not available | Upstream | -100 |
| | | Upstream | -101 |
| | | Upstream | -1607 |
Matrix_55 | PIF3 | Not available | Upstream | -1604 |
Matrix_7 | PIF4 | Not available | Intron | 1317 |
| | | Intron | 766 |
| | | Upstream | -102 |
| | | Upstream | -103 |
| | | Upstream | -1607 |
Matrix_77 | PRR5 | Not available | Upstream | -822 |
| | | Upstream | -1603 |
Matrix_94 | TCP5 | Not available | Intron | 4632 |
Motif_104 | CAREOSREP1 | CAREs (CAACTC regulatory elements) found in the promoter region of a cystein proteinase (REP-1) gene in rice | Downstream | 5706 |
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 | -104 |
| | | Upstream | -1606 |
Motif_193 | GLK1 | GLK transcription factors coordinate expression of the photosynthetic apparatus in Arabidopsis | Downstream | 5711 |
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 | -104 |
| | | Upstream | -229 |
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 | -103 |
| | | Upstream | -104 |
| | | Upstream | -823 |
| | | Upstream | -824 |
| | | Upstream | -1605 |
| | | Upstream | -1606 |
Motif_244 | ABRE-like binding site motif | Not available | Upstream | -102 |
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 | -103 |
| | | Upstream | -104 |
| | | Upstream | -284 |
| | | Upstream | -771 |
| | | Upstream | -843 |
Motif_339 | ABRE-like binding site motif | Molecular responses to dehydration and low temperature | Upstream | -104 |
| | | Upstream | -326 |
| | | Upstream | -1242 |
| | | Upstream | -1606 |
Motif_393 | AUXREPSIAA4 | AuxRE (Auxine responsive element ) of pea PS-IAA4/5 gene; Indoleacetic acid-inducible genes; domain A; TGA1a is preferentially expressed in root tip meristems; TGA1a may contribute to the expression of GST isoenzymes, especially in root tip meristems | Upstream | -133 |
Motif_448 | IRO2OS | OsIRO2-binding core sequence; G-box plus G; Transcription factor OsIRO2 is induced exclusively by Fe deficiency | Upstream | -1606 |
Motif_453 | HEXMOTIFTAH3H4 | hexamer 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 site | Upstream | -325 |
Motif_48 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -106 |
| | | Upstream | -328 |
Motif_484 | RAV1-B binding site motif | Binding 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 plants | Upstream | -229 |
Motif_563 | PYRIMIDINEBOXOSRAMY1A | Pyrimidine 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 site | Upstream | -72 |
Motif_576 | TGACGTVMAMY | TGACGT 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 seeds | Upstream | -325 |
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 | -102 |
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 | Upstream | -50 |
| | | Upstream | -69 |
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 | Upstream | -50 |
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 | -102 |