TABLE 3.
SNPs with the corresponding proteins and possible function elucidated based on the gene annotation using wheat reference sequence (RefSeq V1.0) annotation database.
| QTLs and Env | SNP | Gene ID | Dist. from SNP (in bp) | Gene annotation |
| Q.Sb.bisa-1A (Env 1 and 2) | S1A_497201550 | TraesCS1A01G303600 | +9400 | LURP-one-like protein |
| TraesCS1A01G303700 | −23,504 | GTP cyclohydrolase 1 | ||
| S1A_497201682 | TraesCS1A01G303600 | +9532 | LURP-one-like protein | |
| TraesCS1A01G303700 | −23,372 | GTP cyclohydrolase 1 | ||
| Q.Sb.bisa-1B (Env 1 and 2) | S1B_636840957 | TraesCS1B01G409800 | +2658 | 60Sribosomal protein L35a-like protein |
| TraesCS1B01G409900 | −19,389 | Transmembrane protein, putative | ||
| Q.Sb.bisa-1D (Env 1 and 2) | S1D_89835681 | TraesCS1D01G101800 | +237,973 | Pre-rRNA-processing protein TSR2 |
| TraesCS1D01G101900 | −312,998 | Glucan 1,3-beta-glucosidase | ||
| Q.Sb.bisa-2A (Env 1 and 2) | S2A_703111105 | TraesCS2A01G453900 | +92 | Senescence-associated family protein |
| TraesCS2A01G454000 | −11,947 | Senescence-associated family protein | ||
| S2A_703358397 | TraesCS2A01G454400 | +12,352 | Senescence-associated family protein | |
| TraesCS2A01G454500 | −23,631 | Senescence-associated family protein | ||
| S2A_703391915 | TraesCS2A01G454500 | +9887 | Senescence-associated family protein | |
| TraesCS2A01G454600 | −10,955 | Senescence-associated family protein | ||
| S2A_703391992 | TraesCS2A01G454500 | +9964 | Senescence-associated family protein | |
| TraesCS2A01G454600 | −10,878 | Senescence-associated family protein | ||
| S2A_703427639 | TraesCS2A01G454600 | +24,769 | Senescence-associated family protein | |
| TraesCS2A01G454700 | −20,520 | senescence-associated family protein | ||
| S2A_704446408 | TraesCS2A01G455500 | +427,884 | Cortactin-binding protein 2 | |
| TraesCS2A01G455600 | −307,046 | Lectin receptor kinase | ||
| Q.Sb.bisa-2B (Env1,2, and 3) | S2B_419320960 | TraesCS2B01G299000 | +365,182 | SNF1-related protein kinase regulatory subunit gamma 1 |
| TraesCS2B01G299100 | −717 | Cotton fiber-like protein | ||
| S2B_419456700 | TraesCS2B01G299100 | +135,023 | Cotton fiber-like protein | |
| TraesCS2B01G299200 | −45,804 | Amino acid transporter, putative | ||
| S2B_420723687 | TraesCS2B01G299700 | +520,847 | MYND type zinc finger protein | |
| TraesCS2B01G299800 | −358,751 | RNA binding protein | ||
| S2B_421708152 | TraesCS2B01G300100 | +3383 | UPF0250 protein mma_3250 | |
| TraesCS2B01G300200 | −623 | Isocitrate lyase | ||
| S2B_422031949 | TraesCS2B01G300200 | +323,174 | Isocitrate lyase | |
| TraesCS2B01G300300 | −202,765 | Auxin response factor | ||
| S2B_422190984 | TraesCS2B01G300200 | +482,209 | Isocitrate lyase | |
| TraesCS2B01G300300 | −43,730 | Auxin response factor | ||
| S2B_422191033 | TraesCS2B01G300200 | +482,258 | Isocitrate lyase | |
| TraesCS2B01G300300 | −43,681 | Auxin response factor | ||
| S2B_422507900 | TraesCS2B01G300400 | +7502 | DNAprimase large subunit | |
| TraesCS2B01G300500 | −458,849 | MADS box transcription factor | ||
| S2B_422983662 | TraesCS2B01G300500 | +16,913 | MADS box transcription factor | |
| TraesCS2B01G300600 | −114,123 | Transmembrane protein, putative | ||
| S2B_423094651 | TraesCS2B01G300500 | +127,902 | MADS box transcription factor | |
| TraesCS2B01G300600 | −3134 | Transmembrane protein, putative | ||
| S2B_423836280 | TraesCS2B01G301100 | +868 | Chaperone protein dnaJ | |
| TraesCS2B01G301200 | −63,852 | Zinc knuckle family protein, expressed | ||
| Q.Sb.bisa-4A (Env 1 and 2) | S4A_725538462 | TraesCS4A01G459600 | +272,847 | Protein phosphatase 2C |
| TraesCS4A01G459700 | −33,166 | Seed maturation protein | ||
| S4A_725660945 | TraesCS4A01G460000 | +597 | Eyes absent-like protein | |
| TraesCS4A01G460100 | −8438 | Cytochrome P450 | ||
| S4A_725880148 | TraesCS4A01G460800 | +19,993 | Invertase inhibitor | |
| TraesCS4A01G460900 | −13,027 | Invertase inhibitor | ||
| Q.Sb.bisa-5B (Env1 and 3) | S5B_682958475 | TraesCS5B01G521000 | +5865 | Transmembrane protein, putative |
| TraesCS5B01G521100 | −150,684 | Calmodulin-binding transcription activator | ||
| S5B_683240735 | TraesCS5B01G521200 | +100,340 | Receptor kinase 1 | |
| TraesCS5B01G521300 | −99,434 | NBS-LRR disease resistance protein family-1 | ||
| Q.Sb.bisa-6D (Env 1 and 2) | S6D_6395796 | TraesCS6D01G015700 | +25,746 | Leucine-rich repeat receptor-like protein kinase family protein |
| TraesCS6D01G015800 | −29,399 | Leucine-rich repeat receptor-like protein kinase family protein | ||
| S6D_6944636 | TraesCS6D01G016400 | +120,493 | Transposon protein, putative, CACTA, En/Spm subclass | |
| TraesCS6D01G016500 | −19,307 | Centromere O | ||
| S6D_7194112 | TraesCS6D01G017300 | +30,119 | Auxin transport protein BIG | |
| TraesCS6D01G017400 | −15,620 | Polygalacturonase-1 non-catalytic beta subunit |
Distance from the SNP represents distance of the start site of gene to SNP linked with QTL, where the (+) sign represents that the gene was found downstream of the SNP and the (–) sign represents that the gene was found upstream.