Table 4 Summary of the SNPs observed within the sequences of the genes located in the candidate region of chromosome 11 and among the DEGs detected within the QTL in chromosome 5. The predicted impact and the effect of the SNPs is indicated
From: Insights into the early transcriptomic response against watermelon mosaic virus in melon
Gene name | Chr | log2(Fold Change) | Variants impact | Variants effect | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
High | Low | Moderate | Modifier | Premature start codon gain | Premature stop codon gain | Frameshit variant | Missense variant | Splice acceptor variant | Splice donor variant | Splice region variant | |||
MELO3C004194 | 5 | −1.64 | 3 | 3 | 2 | 12 | 0 | 0 | 0 | 1 | 0 | 3 | 6 |
MELO3C004196 | 5 | −1.52 | 2 | 8 | 1 | 20 | 0 | 0 | 1 | 1 | 0 | 1 | 7 |
MELO3C004200 | 5 | 1.48 | 2 | 5 | 5 | 8 | 0 | 0 | 0 | 5 | 0 | 2 | 2 |
MELO3C004204 | 5 | 2.15 | 8 | 15 | 2 | 21 | 1 | 1 | 1 | 2 | 2 | 5 | 15 |
MELO3C004219 | 5 | 3.16 | 3 | 2 | 1 | 22 | 1 | 1 | 0 | 1 | 1 | 1 | 3 |
MELO3C004305 | 5 | 2.97 | 5 | 3 | 0 | 27 | 0 | 0 | 0 | 0 | 1 | 4 | 6 |
MELO3C004329 | 5 | −2.59 | 0 | 0 | 2 | 33 | 0 | 0 | 0 | 2 | 0 | 0 | 0 |
MELO3C004356 | 5 | 1.14 | 0 | 3 | 2 | 30 | 1 | 0 | 0 | 2 | 0 | 0 | 1 |
MELO3C004366 | 5 | 2.15 | 3 | 3 | 0 | 29 | 0 | 0 | 0 | 0 | 1 | 2 | 4 |
MELO3C004371 | 5 | −1.24 | 1 | 0 | 0 | 37 | 0 | 0 | 1 | 1 | 1 | 0 | 1 |
MELO3C004421 | 5 | 4.36 | 4 | 6 | 4 | 32 | 0 | 0 | 0 | 4 | 1 | 3 | 8 |
MELO3C004433 | 5 | 5.18 | 7 | 9 | 7 | 102 | 1 | 1 | 3 | 9 | 2 | 2 | 6 |
MELO3C004434 | 5 | 4.12 | 0 | 0 | 1 | 101 | 0 | 0 | 0 | 1 | 0 | 0 | 0 |
MELO3C004435 | 5 | 1.88 | 12 | 8 | 7 | 17 | 1 | 0 | 2 | 9 | 4 | 7 | 12 |
MELO3C004438 | 5 | 2.30 | 10 | 16 | 2 | 11 | 0 | 1 | 1 | 3 | 5 | 5 | 21 |
MELO3C004448 | 5 | −4.49 | 1 | 1 | 0 | 13 | 0 | 0 | 0 | 0 | 0 | 1 | 1 |
MELO3C021407 | 11 | 2 | 7 | 1 | 10 | 0 | 0 | 1 | 2 | 0 | 1 | 6 | |
MELO3C021405 | 11 | 1.82 | 1 | 2 | 1 | 27 | 1 | 0 | 0 | 1 | 0 | 1 | 1 |
MELO3C021406 | 11 | 3.95 | 1 | 2 | 8 | 15 | 0 | 0 | 1 | 7 | 0 | 0 | 0 |
MELO3C031841 | 11 | 0 | 0 | 3 | 23 | 0 | 0 | 0 | 3 | 0 | 0 | 0 | |
MELO3C021404 | 11 | 3 | 9 | 12 | 10 | 0 | 0 | 2 | 7 | 1 | 0 | 2 | |
MELO3C021403 | 11 | 0 | 2 | 1 | 5 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | |
MELO3C021400 | 11 | 2 | 5 | 1 | 19 | 0 | 0 | 0 | 1 | 0 | 2 | 5 | |
MELO3C035181 | 11 | 0 | 0 | 1 | 15 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | |
MELO3C021398 | 11 | 1 | 5 | 2 | 16 | 0 | 0 | 0 | 2 | 0 | 1 | 3 | |
MELO3C021397 | 11 | 0 | 0 | 2 | 37 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | |
MELO3C021395 | 11 | 1.02 | 9 | 12 | 10 | 58 | 0 | 0 | 2 | 11 | 3 | 4 | 8 |
MELO3C021394 | 11 | 8 | 15 | 0 | 26 | 0 | 0 | 0 | 0 | 2 | 6 | 18 | |