Table II.
The mature stem up-regulated genes having AuxREs in their promoter region
| AGIa | Gene Description | FnCb | Foldc | Auxin Responsive Cis-Elementsd | Auxin Responsee |
|---|---|---|---|---|---|
| At4g26220 | Caffeoyl-CoA O-methyltransferase | SM | 95.3 | ARFAT, 2 CATATGGMSAUR | Y (26716, 26717) |
| At1g32770 | Similar to OsNAC7 | RT | 82.0 | AUXRETGA1GMGH3 | ND |
| At4g02280 | Putative Suc synthetase | CW | 43.6 | CACGCAATGMGH3, CATATGGMSAUR | ND |
| At4g22680 | AtMYB85, myb transcription factor | RT | 26.5 | CACGCAATGMGH3 | Y (26715, 19775) |
| At4g12480 | pEARLI 1 | CW | 24.4 | AUXRETGA1GMGH3, CATATGGMSAUR | ND |
| At2g43060 | Similar to transcription factor | RT | 24.1 | ARFAT, DR5GMGH3 AUXRETGA2GMGH3 | Y (3749, 6338, 7229) |
| At1g09970 | Similar to receptor-like protein kinase | ST | 19.4 | ARFAT, AUXRETGA1GMGH3 | N |
| At4g08300 | Nodulin-like protein | UN | 18.6 | ARFAT, AUXRETGA1GMGH3 | Y (26716, 3743, 7204, 26715, 19775) |
| At3g05200 | Putative RING-H2 zinc finger protein | RT | 18.4 | ARFAT, AUXRETGA1GMGH3, CATATGGMSAUR | Y (26715) |
| At5g17420 | Cellulose synthase catalytic subunit (IRX3) | CW | 16.2 | AUXRETGA2GMGH3 | Y (19775) |
| At4g12280 | Copper amine oxidase-like | SM | 14.0 | CACGCAATGMGH3, CATATGGMSAUR | Y (3743, 26716, 26717, 19772) |
| At2g36220 | Unknown protein | UN | 13.7 | AUXRETGA1GMGH3 | Y (3749, 26715, 26716) |
| At4g30270 | Xyloglucan endo-1,4-beta-d-glucanase | CW | 13.4 | ARFAT, AUXRETGA1GMGH3 | Y (27308, 26714, 26716, 26717) |
| At1g09440 | Putative ser/thr protein kinase | ST | 10.2 | AUXRETGA1GMGH3 | ND |
| At1g71030 | Similar to myb-related transcription factor | RT | 5.9 | AUXREPSIAA4, GGTCCCATGMSAUR | Y (3749, 3743, 26715, 7228) |
| At2g38860 | Unknown protein | UN | 5.4 | AUXREPSIAA4, CATATGGMSAUR, GGTCCCATGMSAUR | Y (3749, 7229, 7206, 27308) |
| At2g29450 | Glutathione S-transferase | SM | 5.0 | AUXRETGA1GMGH3, CATATGGMSAUR | Y (7229) |
| At2g29500 | Putative small heat shock protein | DF | 5.0 | AUXRETGA1GMGH3 | Y (7229, 26716, 26717, 7228, 26715, 7206) |
| At1g30640 | Putative protein kinase | ST | 4.8 | ARFAT, CATATGGMSAUR, DR5GMGH3 | ND |
| At4g37470 | Putative beta-ketoadipate enol-lactone hydrolase | DF | 4.7 | AUXRETGA2GMGH3 | Y (3743, 3749) |
| At4g16370 | isp4 like protein, oligopeptide transporter | TF | 4.4 | ARFAT, 2 SGBFGMGMAUX28 | ND |
| At2g46830 | MYB-related transcription factor (CCA1) | RT | 4.3 | AUXRETGA2GMGH3, CATATGGMSAUR | N |
| At1g17250 | Putative receptor protein kinase | DF | 4.3 | ARFAT, AUXRETGA1GMGH3 | ND |
| At5g42800 | Dihydroflavonol 4-reductase | SM | 4.1 | ARFAT, AUXREPSIAA4 | Y (26716, 26717, 27308) |
| At4g04830 | Similar to transcriptional regulator | RT | 4.1 | AUXREPSIAA4, CATATGGMSAUR | Y (26715, 26717) |
| At3g50770 | Calmodulin-like protein | ST | 3.9 | ARFAT, AUXREPSIAA4, CATATGGMSAUR | ND |
| At1g19670 | Unknown protein | UN | 3.5 | AUXRETGA2GMGH3 | Y (26716, 26717, 19772) |
| At2g24180 | Putative cytochrome P450 | SM | 3.4 | ARFAT, DR5GMGH3 | N |
| At4g12020 | AtWRKY19 | RT | 3.4 | 2 AUXRETGA1GMGH3 | ND |
| At2g15390 | Unknown protein | UN | 3.3 | AUXRETGA2GMGH3, CATATGGMSAUR | Y (3749, 26716, 26717) |
| At2g35940 | Putative homeodomain transcription factor | RT | 3.2 | ARFAT, AUXREPSIAA4 | Y (7202, 7229, 7206, 6338) |
| At4g20840 | Reticuline oxidase-like | SM | 3.2 | ARFAT, AUXRETGA2GMGH3 | Y (3743) |
| At4g15440 | Hydroperoxide lyase (HPOL) like protein | PM | 3.1 | CACGCAATGMGH3 | Y (7229, 26715, 26716, 26717, 3743) |
Arabidopsis Gene Index (AGI) number.
Functional classification was based on MIPS (http://mips.gsf.de/proj/thal/db/tables/tables_func_frame.html); RT, Regulation of transcription ; ST, signal Transduction; CW, cell wall; TF, transport facilitation; DF, defense; PM, primary metabolism; SM, secondary metabolism; UN, unclassified.
Fold changes of gene expression signals over immature stem; (mature/immature).
AuxREs searched in the PLACE (http://www.dna.affrc.go.jp/htdocs/PLACE/).
Analyzed using Microarray data from Stanford Microarray database (http://genome-www5.stanford.edu/MicroArray/SMD/); Y, at least 2-fold changes of gene expression; N, less than 2-fold change; ND, no data available. Each experiment ID is shown in the parenthesis.