Matrix_101 | ERF5 | Not available | Upstream | -193 |
Matrix_119 | RRTF1 | Not available | Upstream | -194 |
Matrix_138 | RRTF1 | Not available | Upstream | -194 |
Matrix_146 | ORA47 | Not available | Upstream | -193 |
Matrix_155 | RAP2.6;ERF110;ABR1 | Not available | Upstream | -192 |
Matrix_179 | AtMYB84;MYB36;MYB68;O49746_ARATH | Not available | Upstream | -146 |
Matrix_190 | ATERF1 | Not available | Upstream | -193 |
| | | Upstream | -192 |
Matrix_234 | RAP2.3 | Not available | Upstream | -193 |
Matrix_252 | RAP2.6 | Not available | Upstream | -193 |
Matrix_272 | DEAR4 | Not available | Upstream | -193 |
Matrix_280 | TCP24;TCP1;BRC2;ATTCP18 | Not available | Upstream | -192 |
Matrix_287 | ERF2 | Not available | Upstream | -193 |
Matrix_288 | RAP2.3 | Not available | Upstream | -194 |
Matrix_295 | ERF1 | Not available | Upstream | -193 |
Matrix_317 | AT1G06070;AT2G31370;AT2G40620 | Not available | Upstream | -495 |
Matrix_321 | HRD | Not available | Upstream | -193 |
Matrix_334 | AT3G23230 | Not available | Upstream | -192 |
Matrix_343 | AT2G33710 | Not available | Upstream | -193 |
Matrix_355 | ERF10;ERF11 | Not available | Upstream | -194 |
Matrix_363 | RAP2.3 | Not available | Upstream | -194 |
Matrix_378 | ATERF1 | Not available | Upstream | -193 |
Matrix_396 | AP3 | Not available | Downstream | 1577 |
Matrix_426 | CRF1;CRF2 | Not available | Upstream | -192 |
Matrix_473 | RRTF1 | Not available | Upstream | -193 |
| | | Upstream | -192 |
Matrix_510 | AtMYB84 | More than 80 R2R3-MYB regulatory genes in the genome of Arabidopsis thaliana | Upstream | -146 |
Matrix_518 | AT2G21230 | Not available | Upstream | -495 |
Matrix_86 | CRF5;CRF6;CRF4 | Not available | Upstream | -192 |
Motif_104 | CAREOSREP1 | CAREs (CAACTC regulatory elements) found in the promoter region of a cystein proteinase (REP-1) gene in rice | Upstream | -169 |
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 | 1693 |
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 | Upstream | -122 |
| | | Upstream | -120 |
| | | Upstream | -118 |
| | | Upstream | -116 |
Motif_136 | SEF4MOTIFGM7S | SEF4 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) | Downstream | 1889 |
Motif_145 | MYCATERD1 | MYC 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 motif | Upstream | -520 |
Motif_150 | RBCSCONSENSUS | rbcS general consensus sequence; AATCCAA or AATCCAAC | Downstream | 1471 |
Motif_153 | MARABOX1 | A-box found in SAR(scaffold attachment region; or matrix attachment region, MAR) | Downstream | 1660 |
| | | Downstream | 1892 |
Motif_165 | AP3SV40 | AP-3 binding site consensus sequence in enhancer regions of SV40, MMTV, MLV, IL2 | Downstream | 1553 |
Motif_190 | WUSATAg | Target sequence of WUS in the intron of AGAMOUS gene in Arabidopsis | Downstream | 1942 |
Motif_192 | BOXLCOREDCPAL | Consensus of the putative core sequences of box-L-like sequences in carrot; PAL1 promoter region; DCMYB1 bound to these sequences in vitro | Upstream | -503 |
Motif_193 | GLK1 | GLK transcription factors coordinate expression of the photosynthetic apparatus in Arabidopsis | Downstream | 1469 |
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 | -520 |
| | | Upstream | -494 |
| | | Upstream | -394 |
| | | Upstream | -206 |
| | | Downstream | 2043 |
Motif_198 | CARGATCONSENSUS | CArG consensus sequence found in the promoter of Arabidopsis SOC1 which is the MADS-box flowering-time gene; FLC is a component of the vernalization (low-temperature) pathway binds directly to this site and blocks transcriptional activation of SOC1 by CONSTANS (CO) | Downstream | 1939 |
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 | -235 |
Motif_243 | TELOBOXATEEF1AA1 | telo-box (telomere motif) found in the Arabidopsis (A.t.) eEF1AA1 gene promoter; Conserved in all known plant eEF1A gene promoters; Found in the 5' region of numerous genes encoding components of the translational apparatus; Required for the activation of expression in root primordia; Acts co-operatively with tef-box; Binding site of AtPur alpha-1; Plant interstitial telomere mitifs participate in the control of gene expression in root meristems | Downstream | 1578 |
Motif_250 | ACGTOSGLUB1 | ACGT motif found in GluB-1 gene in rice; Required for endosperm-specific expression; Conserved in the 5'-flanking region of glutelin genes; Combination of GCN4, AACA and ACGT motifs was found sufficient to confer a detectable level of endosperm expression | Upstream | -454 |
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 | 1562 |
Motif_286 | SEBFCONSSTPR10A | Binding 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 element | Downstream | 1620 |
Motif_292 | MYBPZM | Core 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 genes | Downstream | 1934 |
Motif_309 | GATA promoter motif | Arabidopsis thaliana GATA factors: organisation, expression and DNA-binding characteristics | Downstream | 1633 |
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 | -192 |
Motif_321 | TATABOX5 | TATA box; TATA box found in the 5'upstream region of pea (Pisum sativum) glutamine synthetase gene; a functional TATA element by in vivo analysis | Downstream | 1586 |
| | | Downstream | 1659 |
| | | Downstream | 1663 |
| | | Downstream | 1893 |
| | | Downstream | 1897 |
Motif_332 | SV40COREENHAN | SV40 core enhancer; Similar sequences found in rbcS genes | Downstream | 1554 |
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 | 1585 |
| | | Downstream | 1660 |
| | | Downstream | 1664 |
| | | Downstream | 1892 |
| | | Downstream | 1896 |
Motif_358 | UP2ATMSD | Up2 motif found in 193 of the 1184 up-regulated genes after main stem decapitation in Arabidopsis | Downstream | 1579 |
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 | 2011 |
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 | -517 |
Motif_410 | ANAERO1CONSENSUS | One of 16 motifs found in silico in promoters of 13 anaerobic genes involved in the fermentative pathway (anaerobic set 1); Arbitrary named ANAERO1CONSENSUS by the PLACEdb curator | Downstream | 2016 |
Motif_441 | GAGA8HVBKN3 | GA octodinucleotide repeat found in intron IV of the barley gene Bkn3; Binding site for GAGA-binding factor BBR | Upstream | -122 |
| | | Upstream | -120 |
| | | Upstream | -118 |
| | | Upstream | -116 |
| | | Upstream | -114 |
Motif_447 | AtMYC2 BS in RD22;PIF4 | Binding 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 responses | Upstream | -520 |
Motif_450 | E2FCONSENSUS | E2F consensus sequence of all different E2F-DP-binding motifs that were experimentally verified in plants | Upstream | -195 |
| | | Downstream | 1589 |
Motif_476 | XYLAT | cis-element identified among the promoters of the core xylem gene set | Downstream | 1626 |
Motif_51 | MYB46 | Identification of a cis-acting regulatory motif recognized by MYB46, a master transcriptional regulator of secondary wall biosynthesis | Downstream | 1562 |
Motif_585 | ATB2/AtbZIP53/AtbZIP44/GBF5 BS in ProDH | PRE (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 Arabidopsis | Downstream | 1533 |
Motif_60 | AtERF-4;AtERF-3 | Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression | Upstream | -193 |
Motif_609 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Downstream | 1602 |
| | | Downstream | 1625 |
| | | Downstream | 2016 |
Motif_618 | MYB1AT | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis | Downstream | 2012 |
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 | Downstream | 1711 |
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 | 1447 |
| | | Downstream | 1448 |
| | | Downstream | 1490 |
| | | Downstream | 1588 |
| | | Downstream | 1685 |
Motif_672 | AP2 | The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element | Downstream | 1602 |
| | | Downstream | 1625 |
| | | Downstream | 2016 |
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 | Upstream | -122 |
| | | Upstream | -120 |
| | | Upstream | -118 |
| | | Upstream | -116 |
| | | Upstream | -114 |
| | | Upstream | -112 |
| | | Upstream | -110 |
| | | Upstream | -108 |
| | | Upstream | -106 |
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 | Downstream | 1694 |
Motif_88 | MYB2AT | Binding site for ATMYB2, an Arabidopsis MYB homolog; ATMYB2 binds oligonucleotides that contained a consensus MYB recognition sequence (TAACTG), such as is in the SV40 enhancer and the maize bronze-1 promoter; ATMYB2 is involved in regulation of genes that are responsive to water stress in Arabidopsis | Upstream | -47 |