| Matrix_107 | AtSPL3 | Not available | Downstream | 1657 |
| Matrix_154 | AT1G22190;AT1G36060;AT1G64380;RAP2.4;AT2G20880;AT2G22200;AT4G13620;AT4G28140;AT4G39780;AT5G65130 | Not available | Upstream | -1536 |
| Matrix_171 | LBD3;LBD4 | Not available | Upstream | -766 |
| Matrix_174 | ZAT2 | Not available | Downstream | 1618 |
| Matrix_215 | ARF1 | ARF1, a transcription factor that binds to auxin response elements | Upstream | -200 |
| Matrix_242 | AT2G25820;AT3G16280;AT4G32800;TINY2;tny | Not available | Downstream | 1748 |
| Matrix_244 | DREB2C | Not available | Downstream | 1749 |
| Matrix_269 | FHY3/FAR1 | Not available | Upstream | -87 |
| | | Upstream | -90 |
| | | Upstream | -93 |
| Matrix_304 | AtSPL3 | Functional dissection of the plant-specific SBP-domain: overlap of the DNA-binding and nuclear localization domains | Downstream | 1657 |
| Matrix_317 | AT1G06070;AT2G31370;AT2G40620 | Not available | Downstream | 1617 |
| Matrix_342 | SPL14 | Identification of a Consensus DNA-Binding Site for the Arabidopsis thaliana SBP Domain Transcription Factor, AtSPL14, and Binding Kinetics by Surface Plasmon Resonance | Downstream | 1659 |
| Matrix_38 | SPL14 | Not available | Downstream | 1653 |
| Matrix_385 | DEAR4 | Not available | Downstream | 1749 |
| Matrix_394 | DREB_U | Not available | Downstream | 1749 |
| Matrix_395 | AT1G19210;ORA47;AT4G31060;AT5G21960 | Not available | Upstream | -1537 |
| Matrix_409 | DEAR3 | Not available | Upstream | -1537 |
| Matrix_454 | AT1G77200;ATERF38;AT4G16750;AT5G52020 | Not available | Downstream | 1749 |
| Matrix_478 | AT1G01250 | Not available | Downstream | 1748 |
| Matrix_518 | AT2G21230 | Not available | Downstream | 1617 |
| Matrix_73 | DEAR3;RAP2.9;RAP2.10 | Not available | Downstream | 1748 |
| Matrix_92 | AT1G33760 | Not available | Downstream | 1749 |
| Motif_115 | HSEs binding site motif | Arabidopsis and the heat stress transcription factor world: how many heat stress transcription factors do we need? | Upstream | -1897 |
| Motif_134 | ANAC092 | NAC Transcription Factor ORE1 and Senescence-Induced BIFUNCTIONAL NUCLEASE1 (BFN1) Constitute a Regulatory Cascade in Arabidopsis | Downstream | 1652 |
| Motif_153 | MARABOX1 | A-box found in SAR(scaffold attachment region; or matrix attachment region, MAR) | Upstream | -1611 |
| | | Upstream | -1840 |
| 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 | Downstream | 1662 |
| 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 | Downstream | 1712 |
| | | Downstream | 1616 |
| | | Upstream | -103 |
| | | Upstream | -148 |
| Motif_216 | PYRIMIDINEBOXHVEPB1 | Pyrimidine box found in the barley EPB-1 (cysteine proteinase) gene promoter; Located between -120 to -113; Required for GA induction | Upstream | -54 |
| | | Upstream | -134 |
| 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 | -214 |
| | | Upstream | -700 |
| | | Upstream | -1395 |
| 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 | Downstream | 1662 |
| | | Downstream | 1659 |
| Motif_305 | SP1SV40 | SP-1 binding site (GC box) in enhancer regions of SV40 and human metallothionein IIA (hMT IIA) | Upstream | -1537 |
| Motif_318 | CGCGBOXAT | CGCG 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 AtSRs | Upstream | -214 |
| Motif_336 | MYBMOUSE | Binding site for mouse c-myb protein | Downstream | 1662 |
| 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 | -190 |
| Motif_549 | TBF1 | The HSF-like transcription factor TBF1 is a major molecular switch for plant growth-to-defense transition | Upstream | -86 |
| | | Upstream | -89 |
| | | Upstream | -92 |
| Motif_615 | MARTBOX | T-Box; Motif found in SAR (scaffold attachment region; or matrix attachment region, MAR) | Upstream | -242 |
| | | Upstream | -1245 |
| | | Upstream | -1248 |
| | | Upstream | -1972 |
Expansion plot
Gene family finder
Ks-graphs
Skyline plot
Synteny plot
WGDotplot
Functional clusters
WGMapping
BLAST
Workbench