Table 5 AS events showing differential isoform ratios between Gw and Ri with no significant regulation between stages
|  |  |  |  | ILD – Gw vs Ri | |||
|---|---|---|---|---|---|---|---|
Gene IDa | GENE NAME – biological process/function | ASb (region)c | specificity | S1 (FDR) | S2 (FDR) | S3 (FDR) | S4 (FDR) |
Gw-specific or -preferential events | |||||||
 Vitvi02g00123 | DSPP - calcium ion binding | A3SS (5’UTR) | ILs-Ri = 1 | −0.43 (0) | −0.40 (0) | −0.39 (0) | −0.35 (0) |
 Vitvi03g01316 | NUP160 - nucleus-to-cytoplasm mRNAs transfer | IR (3’UTR) | ILs-Ri ≥ 0.97 | −0.47 (0) | −0.42 (0) | −0.43 (0) | weak expression |
 Vitvi04g01192 | KRI1 - DNA damage-induced cell apoptosis | ES (3’UTR) | ILs-Ri ≤ 0.01 | 0.36 (9.1 E-10) | 0.23 (1.4 E-05) | 0.16 (3.7 E-04) | 0.16 (2.6 E-05) |
 Vitvi04g01520 | GDAP2 - growth and development | IR (3’UTR) | ILs-Ri = 1 | −0.62 (0) | −0.52 (0) | −0.56 (0) | −0.52 (0) |
 Vitvi05g01796 | MEE - development regulation | ES (5’UTR) | ILs-Ri ≥ 0.97 | −0.53 (0) | −0.50 (0) | −0.49 (0) | −0.33 (4.5 E-05) |
 Vitvi06g00189 | SAP5 - environmental stress response | A5SS (5’UTR) | ILs-Ri ≤ 0.04 | 0.40 (0) | 0.37 (0) | 0.32 (0) | 0.29 (0) |
 Vitvi12g00120 | ACD32.1 - stress response | A5SS (CDS) | ILs-Ri ≤ 0.01 | 0.30 (0) | 0.32 (0) | 0.27 (0) | 0.28 (0) |
 Vitvi12g00210 | unknown | A3SS (CDS) | ILs-Ri = 0 | weak expression | 0.37 (1.0 E-07) | 0.50 (2.5 E-14) | 0.30 (1.1 E-12) |
 Vitvi12g02216 | NRPB4 - transcription initiation | IR (3’UTR) | ILs-Ri = 0 | 0.59 (0) | 0.62 (0) | 0.57 (0) | 0.53 (0) |
 Vitvi14g01289 | SAMDC2 - polyamines biosynthesis/homeostasis | ES (5’UTR) | ILs-Ri = 0 | 0.58 (0) | 0.51 (0) | 0.55 (0) | 0.59 (0) |
 Vitvi14g02028 | GAUT 13 - pectin/xylans biosynthesis | ES (CDS) | ILs-Ri = 1 | −0.23 (4.2 E-07) | −0.17 (3.8 E-04) | −0.24 (0) | −0.15 (9.0 E-12) |
 Vitvi15g00615 | HIBCH1 - amino acid catabolic process | A5SS (CDS) | ILs-Ri ≥ 0.98 | −0.34 (4.5 E-12) | −0.36 (3.6 E-13) | −0.34 (5.6 E-10) | weak expression |
 Vitvi15g01132 | FCF1 - rRNA-processing & 40S assembly | ES (5’UTR) | ILs-Ri ≥ 0.99 | −0.15 (8.7 E-04) | −0.14 (3.6 E-04) | −0.18 (1.7 E-05) | −0.16 (ns) |
 Vitvi15g01132 | FCF1 - rRNA-processing & 40S assembly | ES (5’UTR) | ILs-Ri ≥ 0.98 | −0.15 (1.1 E-05) | −0.17 (7.4 E-06) | −0.20 (1.4 E-07) | −0.29 (1.9 E-05) |
Ri-specific or -preferential events | |||||||
 Vitvi01g01659 | RANBP2 - mRNA processing | ES (CDS) | ILs-Gw ≥ 0.98 | weak expression | 0.15 (6.7 E-04) | 0.28 (0) | 0.14 (1.5 E-03) |
 Vitvi02g00836 | XLG3 - receptor signaling pathway | IR (5’UTR) | ILs-Gw ≥ 0.99 | 0.34 (0) | 0.30 (1.1 E-11) | 0.28 (8.7 E-10) | 0.36 (1.3 E-09) |
 Vitvi03g01648 | Unknown | A3SS (5’UTR) | ILs-Gw ≤ 0.02 | −0.49 (0) | −0.70 (0) | −0.50 (0) | −0.42 (0) |
 Vitvi04g01559 | c(3)G - DNA double-strand breaks repair | A3SS (5’UTR) | ILs-Gw ≥ 0.99 | 0.39 (0) | 0.36 (0) | 0.41 (1.9 E-12) | 0.45 (0) |
 Vitvi04g02261 | MPPED2 - unknown | ES (CDS) | ILs-Gw ≥ 0.99 | 0.75 (0) | 0.85 (0) | 0.86 (0) | 0.64 (0) |
 Vitvi08g01204 | PBL11, NAK - growth and development | A3SS-1 (5’UTR) | ILs-Gw = 1 | 0.54 (6.7 E-14) | 0.46 (0) | 0.47 (ns) | weak expression |
 Vitvi08g01204 | PBL11, NAK - growth and development | A3SS-2 (5’UTR) | ILs-Gw = 1 | 0.42 (ns) | 0.28 (1.7 E-06) | 0.47 (ns) | weak expression |
 Vitvi11g00574 | FBL14 - ubiquitin-dependent protein catabolism | A3SS (5’UTR) | ILs-Gw = 1 | 0.22 (0) | 0.25 (0) | 0.20 (0) | 0.26 (0) |
 Vitvi11g00614 | EF1B - translation elongation | A3SS (5’UTR) | ILs-Gw = 1 | 0.34 (9.7 E-12) | 0.36 (3.9 E-11) | 0.49 (1.3 E-12) | weak expression |
 Vitvi11g00614 | EF1B - translation elongation | ES (5’UTR) | ILs-Gw ≥ 0.97 | 0.54 (0) | 0.36 (2.0 E-03) | 0.57 (0) | 0.77 (0) |
 Vitvi11g01128 | GCNT – transfer of glycosyl groups | A3SS (5’UTR) | ILs-Gw ≤ 0.02 | −0.27 (4.1 E-14) | −0.34 (6.9 E-12) | −0.31 (2.2 E-10) | weak expression |
 Vitvi12g02011 | RPPL1 - disease resistance | IR (3’UTR) | ILs-Gw ≥ 0.93 | 0.34 (3.0 E-04) | 0.32 (2.2 E-05) | 0.41 (3.1 E-14) | 0.42 (4.3 E-12) |
 Vitvi14g01605 | G6PD - glucose metabolic process | ES (5’UTR) | ILs-Gw = 0 | −0.16 (0) | −0.18 (1.6 E-13) | −0.18 (0) | −0.18 (0) |
 Vitvi15g00615 | HIBCH1 - branched-chain amino acid catabolism | ES (CDS) | ILs-Gw = 1 | 0.29 (3.7 E-10) | 0.31 (5.7 E-10) | 0.27 (1.4 E-06) | weak expression |
Other differential events | |||||||
 Vitvi01g00383 | MAF1 - repression of transcription | A3SS (5’UTR) | Isoform shift | 0.44 (0) | 0.45 (0) | 0.43 (1.2 E-13) | 0.45 (3.3 E-10) |
 Vitvi03g00257 | ACY1 - hydrolysis of N-acylated amino acids | A3SS (CDS) | _ | 0.16 (0) | 0.16 (0) | 0.16 (0) | 0.14 (9.5 E-06) |
 Vitvi06g00073 | SCL30A - regulation of mRNA splicing | ES (CDS) | Isoform shift | weak expression | 0.27 (ns) | 0.32 (6.2 E-03) | weak expression |
 Vitvi06g00216 | DTX42 - aluminium tolerance | A5SS (5’UTR) | Isoform shift | 0.56 (0) | 0.39 (9.7 E-10) | 0.42 (1.9 E-04) | 0.30 (1.3 E-03) |
 Vitvi07g01499 | GCL1 - carbohydrate metabolic process | ES (CDS) | _ | −0.30 (1.4 E-07) | −0.28 (2.0 E-04) | −0.24 (1.9 E-09) | −0.32 (0) |
 Vitvi09g01389 | PUM5 - regulation of translation | A3SS (3’UTR) | Isoform shift | weak expression | 0.31 (2.3 E-05) | 0.24 (1.2 E-03) | 0.29 (4.5 E-05) |
 Vitvi10g00052 | OSCA1 - response to osmotic stress | A5SS (5’UTR) | Isoform shift | −0.30 (1.1 E-08) | −0.25 (8.5 E-04) | −0.27 (1.0 E-04) | −0.35 (0) |
 Vitvi10g00094 | SS3 - starch biosynthesis | A5SS (5’UTR) | _ | −0.22 (1.5 E-03) | −0.27 (5.7 E-04) | −0.28 (1.4 E-05) | −0.21 (ns) |
 Vitvi10g00577 | HYDROLASE-LIKE PROTEIN FAMILY | A5SS (3’UTR) | Isoform shift | 0.29 (1.0 E-02) | 0.21 (ns) | 0.32 (7.5 E-04) | 0.32 (6.9 E-03) |
 Vitvi11g00473 | RIBOSOMAL PROTEIN - translation | ES (5’UTR) | _ | 0.13 (1.9 E-03) | 0.20 (2.5 E-13) | 0.16 (5.9 E-09) | 0.14 (4.1 E-05) |
 Vitvi15g00926 | RS40 – RNA/mRNA splicing | ES (5’UTR) | Isoform shift | 0.34 (3.0 E-03) | 0.23 (ns) | 0.34 (3.6 E-10) | 0.23 (1.7 E-06) |