Table 2 The list of significant SNPs identified in consensus over seasons and different algorithms along with SNPs rich annotation information.
Chr | SNPs | SNP ID | Marker | PVE | −log10 | SNPs consensus over | Annotation | Description | ||
|---|---|---|---|---|---|---|---|---|---|---|
Interval | (%) | (p) | Seasons | Algorithms | Gene Name | Gene Bank Identifier | ||||
(distance from SNP in kb) | (NCBI) | |||||||||
A01 | 7 | A01_11942966, A01_11943081, A01_11943121, A01_11944271, A01_11944321, A01_11944366, A01_11944403 | 11942966-4403 | 11.75 | 3.94 | S1 + S2 + S3 + P | Farm CPU, GLM, MLM, GLM (T), MLM (T) | ACX1 (8.90) | 332658399 | Acyl-CoA oxidase 1 |
1 | A01_12606026 | 12606026 | 8.11 | 3.5 | S1 + P | Farm CPU, GLM | LOX5 (4.50) | 1032291524 | Lipoxygenase-1 | |
1 | A01_15152306 | 15152306 | 13.04 | 3.10 | S2 + P | Farm CPU, GLM, GLM (T) | LOX1 (10.00) | 1032297914 | PLAT/LH2 domain-containing lipoxygenase family protein | |
5 | A01_23456622, A01_23456688, A01_23456778, A01_23456803, A01_23456875 | 23456622-875 | 8.25 | 3.1 | S2 + S3 + P | Farm CPU, GLM, Adegnet | SOT 18 (15.00) | 177666949 | Desulfoglucosinolate sulfotransferase | |
1 | A01_23756215 | 23756215 | 8.18 | 3.35 | S3 + P | Farm CPU, GLM | AT1G34047 (8.00) | 240254195 | Defensin-like (DEFL) family protein | |
A03 | 1 | A03_7541673 | 7541673 | 11.52 | 3.21 | S1 + P | Farm CPU, GLM, GLM (T) | phos32 (4.27) | 75161512 | Adenine nucleotide alpha hydrolases-like superfamily protein |
THE1 (0.80) | 75335100 | Malectin/receptor-like protein kinase family protein | ||||||||
A04 | 13 | A04_19791849, A04_19791949, A04_19791988, A04_19791995, A04_19792000, A04_19792007, A04_19792025, A04_19792031, A04_19792043, A04_19792066, A04_19792069, A04_19792114, A04_19792116 | 19791849-2116 | 14.39 | 3.16 | S3 + P | Farm CPU, GLM, GLM (T) | MPKKK17 (20.09) | 15225692 | Mitogen-activated protein kinase kinasekinase 15 |
A05 | 5 | A05_2460823, A05_2460826, A05_2460835, A05_2460841, A05_2461061 | 2460823-1061 | 14.06 | 3.40 | S3 + P | Farm CPU, GLM, GLM (T) | |||
AT2G43620 (8.00) | 15224321 | Chitinase family protein | ||||||||
CHI (5.84) | 15224308 | |||||||||
7 | A05_3029963, A05_3030109, A05_3031956, A05_3049954, A05_3050015, A05_3050242, A05_3050244 | 3029963-50244 | 14.47 | 3.62 | S2 + S3 + P | Farm CPU, GLM, MLM, GLM (T), MLM (T), Adegnet | ERF113 (18.00) | 13272437 | Ethylene responsive element binding factor 2 (ATERF2) | |
HUB1 (3.77) | 30689877 | Histone mono-ubiquitination 2 | ||||||||
3 | A05_3320578, A05_3320584, A05_3320629 | 3320578-629 | 16.04 | 3.69 | S2 + P | Farm CPU, GLM, MLM, GLM (T), MLM (T), Adegnet | CYP76C3 (34.00) | 330255479 | Cytochrome P450, family 76, subfamily C, polypeptide 6 | |
A08 | 1 | A08_3147142 | 3147142 | 12.51 | 3.19 | S3 + P | Farm CPU, GLM, GLM (T) | LECRK91 (13.79) | 15238190 | Concanavalin A-like lectin protein kinase family protein |
A09 | 3 | A09_18223345, A09_18223348, A09_18223407 | 18223345-407 | 15.53 | 3.75 | S1 + S2 | Farm CPU, GLM, GLM(T) | RPS4 (2.04) | 15242354 | Disease resistance protein (TIR-NBS-LRR class) family |
AT5G45060 (3.70) | 15242300 | |||||||||
AT4G19530 (4.10) | 1063723668 | |||||||||
B05 | 1 | B05_13723719 | 13723719 | 7.34 | 3.28 | S2 + P | Farm CPU, GLM, MLM | ERF091 (4.94) | 15233878 | Ethylene responsive element binding factor 2 (ATERF2) |
