| Matrix_132 | SOC1 | Not available | Downstream | 2251 |
| Matrix_144 | AT5G08330;AT5G23280 | Not available | Upstream | -109 |
| | | Upstream | -110 |
| Matrix_169 | E2F1 | Not available | Upstream | -363 |
| Matrix_183 | BES1 | A brassinosteroid transcriptional network revealed by genome-wide identification of BESI target genes in Arabidopsis thaliana | Upstream | -343 |
| | | Upstream | -370 |
| Matrix_186 | FHY3 | Not available | Upstream | -343 |
| | | Upstream | -370 |
| Matrix_196 | TCP20;AT5G41030 | Not available | Upstream | -393 |
| Matrix_232 | TCP23 | Not available | Upstream | -109 |
| Matrix_269 | FHY3/FAR1 | Not available | Downstream | 1988 |
| Matrix_280 | TCP24;TCP1;BRC2;ATTCP18 | Not available | Upstream | -110 |
| Matrix_297 | TCP15 | Not available | Upstream | -109 |
| | | Upstream | -394 |
| Matrix_348 | AT5G51910 | Not available | Upstream | -110 |
| | | Upstream | -395 |
| Matrix_40 | TCP2 | Not available | Upstream | -395 |
| Matrix_42 | AT2G45680 | Not available | Upstream | -110 |
| | | Upstream | -395 |
| Matrix_49 | FHY3/FAR1 | Not available | Upstream | -1188 |
| 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 | -344 |
| | | Upstream | -371 |
| | | Upstream | -623 |
| 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 | -345 |
| | | Upstream | -366 |
| | | Upstream | -372 |
| | | Upstream | -1193 |
| Motif_549 | TBF1 | The HSF-like transcription factor TBF1 is a major molecular switch for plant growth-to-defense transition | Downstream | 1988 |
| | | Downstream | 1985 |
| | | Upstream | -504 |
| 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 | Downstream | 2248 |
| 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 | 2252 |
| 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 | 2252 |
| Motif_689 | ANAC092 | NAC Transcription Factor ORE1 and Senescence-Induced BIFUNCTIONAL NUCLEASE1 (BFN1) Constitute a Regulatory Cascade in Arabidopsis | Upstream | -361 |
| 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 | -128 |
Expansion plot
Gene family finder
Ks-graphs
Skyline plot
Synteny plot
WGDotplot
Functional clusters
WGMapping
BLAST
Workbench