From: Genome-Wide Association Analysis of the Genetic Basis for Sheath Blight Resistance in Rice
SAL ID | Chr. | LD block interval (bp) | LD block size (kb) | No. of suggestive SNPs in LD block | Panel | Lead SNP position (bp) | Lead SNP P value | MSU ID of genes harboring lead SNP | QTL/Marker/Gene previously reported |
---|---|---|---|---|---|---|---|---|---|
L1 | 1 | 23,999,888–23,999,975 | 0.1 | 1 | Whole | 23,999,975 | 1.3E-08 | LOC_Os01g42294-LOC_Os01g42310 |  |
L2 | 1 | 25,337,514–25,449,724 | 112.2 | 1 | Whole | 25,350,468 | 6.8E-08 | LOC_Os01g44200-LOC_Os01g44210 |  |
L3 | 2 | 17,849,943–17,960,809 | 110.9 | 1 | Whole | 17,889,517 | 4.8E-14 | LOC_Os02g30114 |  |
L4 | 2 | 35,718,082–35,816,634 | 98.6 | 17 | Aus | 35,752,298 | 8.9E-07 | LOC_Os02g58470 | QDs2b and QRh2b (Li et al. 2009) |
L5 | 3 | 16,203,266–16,251,439 | 48.2 | 1 | Xian | 16,214,232 | 9.5E-07 | LOC_Os03g28170 |  |
L6 | 3 | 21,967,065–22,099,455 | 132.4 | 1 | Whole | 22,062,214 | 4.2E-09 | LOC_Os03g39660-LOC_Os03g39670 |  |
L7 | 3 | 33,180,575–33,294,172 | 113.6 | 1 | Geng | 33,211,402 | 9.3E-07 | LOC_Os03g58290-LOC_Os03g58300 | qSBR-3 (Kunihiro et al. 2002); qSBPL-3-2 (Wen et al. 2015); qHNLH3 (Zeng et al. 2015); OsWRKY4 (Wang et al. 2015) |
L8 | 4 | 9,578,771–9,768,308 | 189.5 | 1 | Geng | 9,676,399 | 4.5E-06 | LOC_Os04g17660-LOC_Os04g17669 |  |
L9 | 4 | 17,248,318–17,355,392 | 107.1 |  | Whole | 17,255,541 | 5.8E-07 | LOC_Os04g29080-LOC_Os04g29090 |  |
L10 | 5 | 28,879,416–28,948,601 | 69.2 | 1 | Aus | 28,939,653 | 4.4E-06 | LOC_Os05g50480 | RM5784 and RM3286 (Taguchi-Shiobara et al. 2013) |
L11 | 6 | 1,826,635–1,964,451 | 137.8 | 1 | Geng | 1,913,825 | 1.3E-06 | LOC_Os06g04460 |  |
L12 | 6 | 22,541,170–22,604,225 | 63.1 | 1 | Whole | 22,546,226 | 2.0E-06 | LOC_Os06g38100-LOC_Os06g38110 |  |
L13 | 6 | 28,352,324–28,363,626 | 11.3 | 1 | Whole | 28,362,652 | 2.1E-06 | LOC_Os06g46680-LOC_Os06g46690 | QRlh6 (Xie et al. 2008); qshb6.1 (Yadav et al. 2015); OsCHI11 (Karmakar et al. 2017) |
L14 | 7 | 8,485,551–8,669,352 | 183.8 | 1 | Aus | 8,569,372 | 4.2E-06 | LOC_Os07g14940-LOC_Os07g14950 |  |
L15 | 7 | 15,236,665–15,247,698 | 11.0 | 1 | Whole | 15,244,300 | 4.4E-10 | LOC_Os07g26490-LOC_Os07g26500 | qSBR7–1 (Channamallikarjuna et al. 2010) |
L16 | 9 | 6,313,772–6,328,962 | 15.2 | 1 | Whole | 6,317,362 | 2.3E-07 | LOC_Os09g11360-LOC_Os09g11370 | qHZaDR9 (Zeng et al. 2015) |
L17 | 9 | 10,897,450–10,929,683 | 32.2 | 1 | Whole | 10,915,359 | 8.2E-07 | LOC_Os09g17830-LOC_Os09g17840 |  |
L18 | 9 | 18,082,609–18,092,891 | 10.3 | 1 | Geng | 18,092,604 | 3.9E-06 | LOC_Os09g29760-LOC_Os09g29780 | qSB-9 (Han et al. 2002); qSBR9–1 (Channamallikarjuna et al. 2010); qshb9.1 (Yadav et al. 2015); RM6251 and RM3533 (Taguchi-Shiobara et al. 2013); bc15/OsCTL1 (Wu et al. 2012) |
L19 | 10 | 3,996,721–4,021,580 | 24.9 | 1 | Whole | 4,011,130 | 2.5E-09 | LOC_Os10g07520-LOC_Os10g07530 | QRlh10b (Xie et al. 2008) |
L20 | 10 | 9,226,748–9,327,350 | 100.6 | 1 | Geng | 9,326,435 | 8.1E-07 | LOC_Os10g18360 |  |
L21 | 10 | 11,281,341–11,387,999 | 106.7 | 1 | Whole | 11,381,173 | 1.2E-08 | LOC_Os10g22030 |  |
L22 | 10 | 11,610,905–11,623,071 | 12.2 | 1 | Whole | 11,620,213 | 2.1E-08 | LOC_Os10g22440-LOC_Os10g22450 |  |
L23 | 10 | 14,423,809–14,585,826 | 162.0 | 1 | Geng | 14,523,517 | 5.3E-12 | LOC_Os10g28009-LOC_Os10g28020 | qDs10 (Li et al. 2009) |
L24 | 10 | 16,612,339–16,716,107 | 103.8 | 1 | Whole | 16,616,152 | 6.1E-08 | LOC_Os10g31680-LOC_Os10g31700 |  |
L25 | 11 | 5,702,715–5,767,077 | 64.4 | 1 | Geng | 5,708,512 | 1.8E-07 | LOC_Os11g10460-LOC_Os11g10470 | |
L26 | 11 | 25,530,571–25,595,331 | 64.8 | 33 | Aus | 25,580,510 | 6.9E-07 | LOC_Os11g42450-LOC_Os11g42470 | QDs11b and QRh11 (Li et al. 2009); qSBR11–1 (Channamallikarjuna et al. 2010) |
L27 | 12 | 21,483,436–21,483,932 | 0.5 | 1 | Whole | 21,483,904 | 8.4E-08 | LOC_Os12g35340-LOC_Os12g35350 | qSBPL-12 (Wen et al. 2015) |