Table 1.
Summary of down-regulated differentially expressed genes in WT VS oxs2-1 comparison group discovered by RNA-seq. DEGs were ranked from top to bottom according to the fold change (WT VS oxs2-1) identified by qPCR. BOXS2 is a CT-rich motif in the putative promoter (2 Kb upstream of the coding region), which was calculated by a position frequency matrix tool according to the SAAB result24.
| DEG Number | GeneID | Fold Change (qPCR) WT VS oxs2-1 | BOXS2 |
|---|---|---|---|
| DEG2 | AT3G44006 | 10.466369 | CTTCTTCTC (1386-1394) |
| DEG3 | AT4G29200 | 10.464263 | CTTCTTCTC (1143-1151) |
| DEG4 | AT4G34790 | 9.5341629 | CTTCCTTTC (892–900) |
| DEG18 | AT4G12980 | 6.902787 | CTTCTTTTC (1609–1617) |
| DEG10 | AT3G01500 | 5.0696121 | CTCGCTCTC (1427–1435) CTTCTTCTC (1525–1533) CTTCTTTTC (1927–1935) |
| DEG19 | AT5G25980 | 3.6420667 | |
| DEG24 | AT5G38420 | 3.619712 | CTTCTTCTC (1089–1097) |
| DEG5 | AT3G05945 | 3.2440316 | |
| DEG6 | AT3G30720 | 3.0215489 | CTCCTTTTC (1951–1959) |
| DEG13 | AT3G27690 | 2.918036 | CTCGCTCTC (1022–1030) |
| DEG12 | AT5G14740 | 2.7840692 | CTCCCTTTC (931–939) |
| DEG25 | AT1G29395 | 2.4340653 | |
| DEG28 | AT3G05727 | 2.1557582 | CTTCTTCTC (1199–1207) |
| DEG16 | AT4G14400 | 1.8827915 | |
| DEG7 | AT2G42380 | 1.8514639 | CTTCTTCTC (153–161) |
| DEG1 | AT3G49230 | 1.5516772 | |
| DEG23 | AT1G11120 | 1.1261533 | CTTCCTCTC (1938–1946) |
| DEG22 | AT4G26530 | 1.0748932 | |
| DEG15 | AT5G48490 | 1.044392 | |
| DEG20 | AT4G02850 | 1.0277407 | CTCCTTGTC (1589–1597) |
| DEG11 | AT2G34430 | 0.9983498 | |
| DEG14 | AT2G29290 | 0.9854896 | |
| DEG21 | AT2G34170 | 0.9825152 | |
| DEG8 | AT5G38930 | 0.9305307 | |
| DEG27 | AT1G62500 | 0.8855457 | |
| DEG26 | AT1G73600 | 0.8696551 | |
| DEG17 | AT1G10657 | 0.8609541 | CTTCTTTTC (174–182) |
| DEG9 | AT2G41900 | CTCCCTCTC (375–383) CTCCTTCTC (476–483) |
Numbers in the parenthesis represent the position of the motif from 2 Kb before the coding region.