Table 1

Cis-elements enriched in promoters of RGL2-up-regulated genes
Consensus sequence Putative cis-element1 Associated type of transcription factor %2 TIC3 e-value
TTTTTCAA Pyrimidine box-like / PE1/AT-hook element-like / GT element-like GAMYB / PF1, GT1 / GT3b 46 14.53 2e-005
AAAAAAAAAG AAAAG element / PE1/AT-hook element-like Dof1, Dof4, Dof11, Dof16 / PF1 42 19.02 0e+000
AATAAAGA TAAAG element Dof4, Dof11, Dof16 37 14.50 0e+000
TCTCTCTTT GAGA element-like / TCA-1 binding site GAGA-binding factor BBR / TCA-1 32 17.00 2e-005
TATTTGTTT GARE-like / AuxRE-like GAMYB / ARF1 31 16.08 0e+000
TTAGTTTT Myb box-like MYB1 29 15.03 2e-005
TTTGTTTTC Pyrimidine box-like/GARE / GT element-like / AuxRE-like GAMYB / HD PR2 / ARF1 27 16.23 0e+000
TTTCTTTG TCA-1 binding site TCA-1 (tobacco nuclear protein 1) 26 16.00 0e+000
TGCTTCTC CAMTA3 binding site / AuxRE-like / IDE1 (iron-deficiency-responsive element 1) CAMTA3 / ARF1 26 13.44 3e-005
AAAAAAATG AT hook/PE1 element-like PF1 / DBP 23 16.45 2e-005
CTTATAT TATA-box TBP 21 15.10 0e+000
CAAGAATG AAGAA motif Dof2 20 14.03 0e+000
GATTTTGTT GARE-like GAMYB 20 16.05 3e-005
AAGACAAA GARE-like GAMYB 20 16.00 0e+000

1Homology with motifs identified in Arabidopsis and other plant species (TRANSFAC, PLACE and AGRIS databases).

2Percent occurrence in critical promoters relative to background sequences.

3Total Information Content.

Promoter motifs identified in promoters of RGL2-UP, with consensus sequence, name and associated transcription factors.

Stamm et al.

Stamm et al. BMC Plant Biology 2012 12:179   doi:10.1186/1471-2229-12-179

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