| Matrix_35 | YAB5;YAB3 | Not available | Upstream | -141 |
| 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 | Upstream | -541 |
| | | Upstream | -543 |
| Motif_358 | UP2ATMSD | Up2 motif found in 193 of the 1184 up-regulated genes after main stem decapitation in Arabidopsis | Upstream | -100 |
| Motif_603 | SITEIIATCYTC | Site II element found in the promoter regions of cytochrome genes (Cytc-1, Cytc-2) in Arabidopsis; Located between -147 and -156 from the translational starts sites;Overrepresented in the promoters of nuclear genes encoding components of the oxidative phosphorylation (OxPhos) machinery from both Arabidopsis and rice | Upstream | -129 |
| | | Upstream | -143 |
| | | Upstream | -172 |
| | | Upstream | -1005 |
| | | Upstream | -1020 |
| Motif_94 | UP1ATMSD | Up1 motif found in 162 of the 1184 up-regulated genes after main stem decapitation in Arabidopsis | Upstream | -172 |
| | | Upstream | -1002 |
| | | Upstream | -1020 |
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