Table I. Illumina transcriptome results of selected transcripts encoding proteins altered by storage protein suppression in SP− along with selected additional seed proteins shown as quantitative data.
The transcript number corresponds to its number in the Excel data set (Supplemental Table S3). The RPKM is an adjusted transcript count that was adjusted for transcript length, and fold values are for Jack RPKM/SP− RPKM, reflecting differential transcript abundance. The glycinin (G1–G3 isoforms) and α-, α′-, and β-subunits of conglycinin exhibit nearly complete silencing. The transcripts of the major proteins that rebalance the storage protein shortfall (lectin, P34, and KTI) exhibit 2-fold or less increase in transcript abundance.
| Transcript No. | Name | Jack RPKM | SP− RPKM | Fold Jack/SP− |
| 1527 | Glycinin G1 | 23,402 | 133 | −175.0 |
| 1526 | Glycinin G2 | 20,923 | 134 | −155.0 |
| 0379 | Glycinin G3 | 7,547 | 47 | −75.0 |
| 1525 | Glycinin G4 | 12,601 | 14,459 | 1.14 |
| 644 | Glycinin A3B4 | 6,257 | 15,885 | 2.55 |
| 5230 | Conglycinin α/α′ | 8,642 | 57 | −150 |
| 1365 | Conglycinin α | 3,277 | 81 | −40 |
| 4119 | Conglycinin β | 1,173 | 2,971 | 2.53 |
| 5734 | Conglycinin β | 1,244 | 6,095 | 4.90 |
| 4080 | Lectin | 3,639 | 8,435 | 2.32 |
| 7124 | KTI | 6,399 | 6,478 | 1.01 |
| 382 | KTI | 2,935 | 2,031 | −1.44 |
| 3256 | Suc-binding protein | 2,970 | 3,851 | 1.29 |
| 10331 | P34 allergen | 12,047 | 16,089 | 1.33 |
| 6408 | BBI | 13,024 | 8,228 | −1.58 |
| 8253 | 7S-28k allergen | 764 | 1,418 | 1.85 |
| 9370 | 2S albumin | 4,033 | 4,579 | 1.13 |
| 9393 | 2S albumin | 3,996 | 6,465 | 1.61 |
| 1002 | α-TIP | 508 | 946 | 1.86 |
| 2622 | P24 oleosin | 6,060 | 8,251 | 1.36 |
| 2933 | Low-Mr Cys-rich inhibitor | 2,364 | 3,792 | 1.66 |
| 1041 | FAD2 | 569 | 19 | −28 |