Table 4 Candidate genes identified by integrating RNA-seq with linkage mapping or GWAS
B. napus gene ID | Ath homolog | Gene name | Gene annotation | GWAS QTL | Linkage mapping QTL | log2(ER/EV) | log2(ER/LR) | log2(EV/LV) | log2(LR/LV) |
|---|---|---|---|---|---|---|---|---|---|
BnaC04g15640D | TOE1 | BnaTOE1.C04 | TARGET OF EARLY ACTIVATION TAGGED 1 | S14_13322100, S14_13322121 | – | – | – | − 1.22 | – |
BnaA03g40160D | TOC1 | BnaTOC1.A03 | TIMING OF CAB EXPRESSION 1 | S3_20114553 | q18MT.A03-2 | – | − 1.78 | – | 1.56 |
BnaC09g05250D | TOC1 | BnaTOC1.C09 | TIMING OF CAB EXPRESSION 1 | S19_30931596 | – | 1.45 | − 1.46 | – | 2.71 |
BnaC06g15270D | LNK2 | BnaLNK2.C06 | NIGHT LIGHT-INDUCIBLE AND CLOCK-REGULATED 2 | S16_17975794 | – | – | 2.47 | – | − 3.12 |
BnaA04g22640D | ELF4 | BnaELF4.A04 | EARLY FLOWERING 4 | – | q18FP.A04 | 1.73 | − 1.04 | – | 3.24 |
BnaA05g05560D | ELF4 | BnaELF4.A05 | EARLY FLOWERING 4 | S5_3021806 | – | 2.10 | − 1.49 | – | 4.29 |
BnaA05g05000D | AGL6 | BnaAGL6.A05 | AGAMOUS-LIKE 6 | – | q17DFF.A05-2 | 1.99 | – | – | – |
BnaC09g48370D | GA20OX3 | BnaGA20OX3.C09 | GIBBERELLIN 20-OXIDASE 3 | S19_47135806 | – | 3.12 | – | − 4.40 | – |
BnaC02g36310D | ICE1 | BnaICE1.C02 | INDUCER OF CBF EXPRESSION 1 | S12_39314951 | – | − 2.62 | – | – | – |
BnaC09g23670D | AGL14 | BnaAGL14.C09 | AGAMOUS-LIKE 14 | – | q17GP.C09 | − 1.48 | – | – | − 2.27 |
BnaA03g39820D | FUL | BnaFUL.A03 | FRUITFULL | S3_20114553 | q18MT.A03-2 | 2.89 | – | – | 4.10 |
BnaA05g05010D | SOC1 | BnaSOC1.A05 | SUPPRESSOR OF OVEREXPRESSION OF CO 1 | – | q17DFF.A05-2 | – | – | 1.56 | 1.83 |