Curated GWAS information from three former studies: "Huang X, Wei X, Sang T, et al. Genome-wide association studies of 14 agronomic traits in rice landraces. Nature genetics; 2010. p. 961-7." "Huang X, Zhao Y, Wei X, et al. Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm. Nature genetics 2012; 44(1): 32-9." "Zhao K, Tung CW, Eizenga GC, et al. Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa. Nature communications 2011; 2: 467." Tissue Chromosome Coordinate RAP-DB id RGAP id Gene Feature Alkali spreading value chr3 29613185 Os03g0713200 LOC_Os03g50530 hit the cds Alkali spreading value chr6 7018949 Os06g0234800 LOC_Os06g12830 hit the non-coding region in a gene Alkali spreading value chr6 7669860 Os06g0247900 LOC_Os06g13830 within 2k away from the gene body Amylose content chr6 5873708 Os06g0215400 LOC_Os06g11190 hit the cds Amylose content chr1 28929447 Os01g0665200 LOC_Os01g47530 hit the cds Amylose content chr2 36010687 Os02g0818800 LOC_Os02g57340 hit the cds Amylose content chr5 3461409 Os05g0159000 LOC_Os05g06690 hit the non-coding region in a gene Amylose content chr5 4965490 Os05g0182900 LOC_Os05g09000 hit the non-coding region in a gene Amylose content chr6 872671 Os06g0115600 LOC_Os06g02520 hit the non-coding region in a gene Amylose content chr6 1757040 Os06g0132600 LOC_Os06g04190 hit the non-coding region in a gene Amylose content chr6 1764762 Os06g0133000 LOC_Os06g04200 hit the non-coding region in a gene Amylose content chr6 3589970 Os06g0171600 LOC_Os06g07474 hit the non-coding region in a gene Amylose content chr7 1659938 Os07g0131000 LOC_Os07g03890 hit the non-coding region in a gene Amylose content chr6 31185411 Os06g0714200 LOC_Os06g50030 within 2k away from the gene body Amylose content chr3 26343256 Os03g0655600 LOC_Os03g45300 within 2k away from the gene body Amylose content chr7 30155546 Os07g0693400 LOC_Os07g49260 within 2k away from the gene body Amylose content chr9 6016605 Os09g0272500 LOC_Os09g10000 within 2k away from the gene body Amylose content chr6 4211403 Os06g0184300 LOC_Os06g08530 within 2k away from the gene body Amylose content chr10 15922607 Os10g0434200 LOC_Os10g29750 within 2k away from the gene body Amylose content chr11 24905068 Os11g0600600 LOC_Os11g38790 within 2k away from the gene body Amylose content chr12 18999450 Os12g0496900 LOC_Os12g31350 within 2k away from the gene body Amylose content chr12 10993688 Os12g0287850 - within 2k away from the gene body Awn presence chr4 23043902 Os04g0453500 LOC_Os04g38042 hit the non-coding region in a gene Awn presence chr10 19978483 Os10g0508500 LOC_Os10g36490 hit the non-coding region in a gene Awn presence chr12 2392067 Os12g0148600 LOC_Os12g05320 hit the non-coding region in a gene Awn presence chr12 13846123 Os12g0428600 LOC_Os12g24080 hit the non-coding region in a gene Awn presence chr6 28040154 Os06g0659800 LOC_Os06g44930 within 2k away from the gene body Blast resistance chr11 4414147 Os11g0187000 LOC_Os11g08390 hit the non-coding region in a gene Blast resistance chr12 10866023 Os12g0285600 LOC_Os12g18770 hit the non-coding region in a gene Blast resistance chr6 4636191 Os06g0191800 LOC_Os06g09220 within 2k away from the gene body Brown rice length/width ratio chr4 29588237 Os04g0578700 LOC_Os04g48940 hit the non-coding region in a gene Brown rice length/width ratio chr11 1121046 Os11g0124900 LOC_Os11g03160 hit the non-coding region in a gene Brown rice length/width ratio chr3 16374978 Os03g0393700 LOC_Os03g27590 within 2k away from the gene body Brown rice length/width ratio chr3 22215447 Os03g0582800 LOC_Os03g38640 within 2k away from the gene body Brown rice seed length chr6 18038794 Os06g0494100 LOC_Os06g29810 hit the cds Brown rice seed length chr1 3149027 Os01g0160300 LOC_Os01g06680 within 2k away from the gene body Brown rice seed width chr3 22030455 Os03g0579800 - hit the non-coding region in a gene Brown rice seed width chr5 5407394 Os05g0188500 LOC_Os05g09620 hit the non-coding region in a gene Brown rice seed width chr3 18377553 Os03g0425000 LOC_Os03g31150 within 2k away from the gene body Brown rice seed width chr3 18377553 Os03g0425033 - within 2k away from the gene body Brown rice seed width chr9 6436379 Os09g0279400 LOC_Os09g10750 within 2k away from the gene body Brown rice volume chr5 4958195 Os05g0182800 LOC_Os05g08990 hit the cds Brown rice volume chr11 28148121 Os11g0657000 LOC_Os11g43590 hit the cds Brown rice volume chr10 20883218 Os10g0525200 LOC_Os10g38120 hit the non-coding region in a gene Brown rice volume chr10 23138709 Os10g0572100 LOC_Os10g42180 hit the non-coding region in a gene Brown rice volume chr2 30504228 Os02g0714300 LOC_Os02g48370 within 2k away from the gene body Culm habit chr3 5560056 Os03g0205700 LOC_Os03g10800 hit the non-coding region in a gene Culm habit chr11 9124767 Os11g0265500 LOC_Os11g16420 hit the non-coding region in a gene Culm habit chr1 31141748 Os01g0707500 LOC_Os01g51140 within 2k away from the gene body Drought tolerance chr11 21161361 Os11g0531300 LOC_Os11g32720 hit the cds Drought tolerance chr6 28243628 Os06g0663200 LOC_Os06g45280 hit the non-coding region in a gene Flag leaf length chr7 27290538 Os07g0639800 LOC_Os07g44620 hit the cds Flag leaf length chr4 16725640 Os04g0350300 LOC_Os04g28260 hit the non-coding region in a gene Flag leaf length chr1 522844 Os01g0109700 LOC_Os01g01960 within 2k away from the gene body Flag leaf width chr1 3479541 Os01g0168100 LOC_Os01g07370 hit the cds Flag leaf width chr2 25342020 Os02g0617200 LOC_Os02g40420 hit the cds Flag leaf width chr4 31466549 Os04g0612600 LOC_Os04g52270 hit the non-coding region in a gene Flag leaf width chr4 32648070 Os04g0633900 LOC_Os04g54130 hit the non-coding region in a gene Flag leaf width chr8 24543006 Os08g0495300 LOC_Os08g38690 hit the non-coding region in a gene Flag leaf width chr8 26814302 Os08g0535200 LOC_Os08g42350 hit the non-coding region in a gene Flag leaf width chr7 25505183 Os07g0605800 LOC_Os07g41460 within 2k away from the gene body Flag leaf width chr11 11416239 Os11g0302800 LOC_Os11g19730 within 2k away from the gene body Florets per panicle chr3 850429 Os03g0115400 LOC_Os03g02440 hit the cds Florets per panicle chr1 2270427 Os01g0142200 LOC_Os01g04910 hit the non-coding region in a gene Flowering time at Arberdeen chr1 44769781 Os01g0973300 LOC_Os01g74180 hit the non-coding region in a gene Flowering time at Arberdeen chr2 18136140 Os02g0494700 LOC_Os02g29230 hit the non-coding region in a gene Flowering time at Arberdeen chr4 29280570 Os04g0573200 LOC_Os04g48410 hit the non-coding region in a gene Flowering time at Arberdeen chr6 1933660 Os06g0136600 LOC_Os06g04510 hit the non-coding region in a gene Flowering time at Arberdeen chr6 9353534 Os06g0275500 LOC_Os06g16390 hit the non-coding region in a gene Flowering time at Arberdeen chr6 17294489 Os06g0483200 LOC_Os06g28820 hit the non-coding region in a gene Flowering time at Arberdeen chr8 22969296 Os08g0465800 LOC_Os08g36320 hit the non-coding region in a gene Flowering time at Arberdeen chr2 25431139 Os02g0618250 LOC_Os02g40514 within 2k away from the gene body Flowering time at Arberdeen chr1 42159727 Os01g0922800 LOC_Os01g69850 within 2k away from the gene body Flowering time at Arberdeen chr2 20757433 Os02g0537800 LOC_Os02g33460 within 2k away from the gene body Flowering time at Arberdeen chr1 24995072 Os01g0595400 LOC_Os01g41220 within 2k away from the gene body Flowering time at Arberdeen chr6 11145980 Os06g0298200 LOC_Os06g19444 within 2k away from the gene body Flowering time at Arkansas chr9 22700553 Os09g0551900 LOC_Os09g37930 hit the cds Flowering time at Arkansas chr3 3745754 Os03g0170400 LOC_Os03g07430 within 2k away from the gene body Flowering time at Arkansas chr1 25023168 Os01g0596100 LOC_Os01g41290 within 2k away from the gene body FT ratio of Arkansas/Arberdeen chr6 20660823 Os06g0530700 LOC_Os06g33980 hit the cds FT ratio of Arkansas/Arberdeen chr8 24216018 Os08g0487800 LOC_Os08g38086 hit the cds FT ratio of Arkansas/Arberdeen chr6 9316441 Os06g0274500 LOC_Os06g16330 hit the non-coding region in a gene FT ratio of Arkansas/Arberdeen chr6 17294868 Os06g0483200 LOC_Os06g28820 hit the non-coding region in a gene FT ratio of Arkansas/Arberdeen chr8 24291715 Os08g0489800 LOC_Os08g38200 within 2k away from the gene body FT ratio of Arkansas/Arberdeen chr7 23896322 Os07g0574633 LOC_Os07g38710 within 2k away from the gene body FT ratio of Faridpur/Arberdeen chr10 20885755 Os10g0525200 LOC_Os10g38120 hit the non-coding region in a gene FT ratio of Faridpur/Arberdeen chr6 10915189 Os06g0294600 LOC_Os06g19070 within 2k away from the gene body Gelatinization Temperature chr6 6726587 Os06g0229300 LOC_Os06g12400 hit the non-coding region in a gene Gelatinization temperature chr6 6726252 Os06g0229300 LOC_Os06g12400 hit the non-coding region in a gene Gelatinization Temperature chr11 22564279 Os11g0557700 LOC_Os11g35340 hit the non-coding region in a gene Gelatinization Temperature chr5 28906320 Os05g0579000 LOC_Os05g50280 within 2k away from the gene body Gelatinization Temperature chr8 19334399 Os08g0403300 LOC_Os08g31140 within 2k away from the gene body Grain length chr3 17637475 Os03g0411600 LOC_Os03g29830 hit the non-coding region in a gene Grain length chr4 1135241 Os04g0119500 LOC_Os04g02910 within 2k away from the gene body Grain length chr1 5966086 Os01g0209700 LOC_Os01g11150 within 2k away from the gene body Grain weight chr7 19248564 Os07g0496200 LOC_Os07g31380 hit the non-coding region in a gene Grain weight chr7 19574163 Os07g0501700 LOC_Os07g31830 hit the non-coding region in a gene Grain weight chr8 12483220 Os08g0301200 LOC_Os08g20636 hit the non-coding region in a gene Grain weight chr8 20985668 Os08g0431900 LOC_Os08g33488 hit the non-coding region in a gene Grain weight chr1 23687541 Os01g0573200 - within 2k away from the gene body Grain weight chr7 15905023 Os07g0446100 LOC_Os07g26490 within 2k away from the gene body Grain width chr2 35545283 Os02g0810500 LOC_Os02g56570 hit the non-coding region in a gene Grain width chr5 4850026 Os05g0180700 LOC_Os05g08820 hit the non-coding region in a gene Grain width chr5 4942020 Os05g0182500 LOC_Os05g08960 hit the non-coding region in a gene Grain width chr10 19100315 Os10g0491100 - hit the non-coding region in a gene Heading data chr2 1439288 Os02g0127700 LOC_Os02g03540 hit the cds Heading data chr7 24952910 Os07g0596600 LOC_Os07g40550 within 2k away from the gene body Heading data chr4 18773995 Os04g0382300 LOC_Os04g31340 within 2k away from the gene body Heading data chr2 30818552 Os02g0721400 LOC_Os02g48940 within 2k away from the gene body Heading date chr1 4621927 Os01g0186700 LOC_Os01g09200 hit the non-coding region in a gene Heading date chr6 2939131 Os06g0157700 LOC_Os06g06320 hit the non-coding region in a gene Hull color chr6 10378142 Os06g0286500 LOC_Os06g17880 hit the non-coding region in a gene Hull color chr8 20947967 Os08g0431300 LOC_Os08g33440 hit the non-coding region in a gene Leaf angle chr4 24729628 Os04g0487000 LOC_Os04g41000 hit the non-coding region in a gene Leaf pubescence chr6 10446195 Os06g0287700 LOC_Os06g17970 hit the cds Leaf pubescence chr9 19344229 Os09g0484300 LOC_Os09g31090 hit the cds Leaf pubescence chr12 21759912 Os12g0538800 LOC_Os12g35350 hit the cds Leaf pubescence chr2 35263561 Os02g0805800 LOC_Os02g56200 hit the non-coding region in a gene Leaf pubescence chr5 818587 Os05g0115200 - hit the non-coding region in a gene Leaf pubescence chr7 20713211 Os07g0519300 LOC_Os07g33560 hit the non-coding region in a gene Leaf pubescence chr12 27348425 Os12g0632900 LOC_Os12g43660 within 2k away from the gene body Leaf pubescence chr2 27166521 Os02g0652100 LOC_Os02g43560 within 2k away from the gene body Leaf pubescence chr5 2985983 Os05g0152201 LOC_Os05g06014 within 2k away from the gene body Leaf pubescence chr2 23961378 Os02g0595300 LOC_Os02g38180 within 2k away from the gene body Leaf pubescence chr2 25148959 Os02g0614800 LOC_Os02g40120 within 2k away from the gene body Leaf pubescence chr9 11467816 Os09g0347300 LOC_Os09g17810 within 2k away from the gene body Panicle fertility chr2 9523764 Os02g0265700 LOC_Os02g16600 within 2k away from the gene body Panicle length chr6 23032060 Os06g0571800 LOC_Os06g37450 hit the non-coding region in a gene Panicle number per plant chr12 3744707 Os12g0174000 LOC_Os12g07530 hit the cds Panicle number per plant chr12 24948584 Os12g0590900 LOC_Os12g40010 hit the cds Panicle number per plant chr4 33330419 Os04g0647300 LOC_Os04g55360 within 2k away from the gene body Panicle number per plant chr9 20363174 Os09g0508500 LOC_Os09g33460 within 2k away from the gene body Pericarp Color chr3 31599995 Os03g0749100 LOC_Os03g53790 hit the cds Pericarp Color chr2 34824975 Os02g0797400 LOC_Os02g55410 hit the non-coding region in a gene Pericarp color chr5 5322651 Os05g0187100 LOC_Os05g09500 hit the non-coding region in a gene Pericarp color chr5 23921117 Os05g0485500 LOC_Os05g40720 hit the non-coding region in a gene Pericarp color chr6 3649715 Os06g0172200 LOC_Os06g07560 hit the non-coding region in a gene Pericarp color chr6 6720732 Os06g0229200 LOC_Os06g12390 hit the non-coding region in a gene Pericarp Color chr8 12483076 Os08g0301200 LOC_Os08g20636 hit the non-coding region in a gene Pericarp color chr12 27275219 Os12g0631600 LOC_Os12g43580 hit the non-coding region in a gene Pericarp color chr5 985909 Os05g0119350 - within 2k away from the gene body Pericarp color chr3 28472246 Os03g0692400 LOC_Os03g48600 within 2k away from the gene body Pericarp color chr6 1735460 Os06g0132500 LOC_Os06g04169 within 2k away from the gene body Pericarp color chr10 5782619 Os10g0188300 LOC_Os10g11034 within 2k away from the gene body Plant height chr8 3793295 Os08g0164800 - hit the cds Plant height chr1 33419399 Os01g0754701 LOC_Os01g55070 hit the non-coding region in a gene Plant height chr1 39868429 Os01g0878300 LOC_Os01g65650 hit the non-coding region in a gene Plant height chr11 30654091 Os11g0704700 LOC_Os11g47830 within 2k away from the gene body Plant height chr1 34825336 Os01g0780600 LOC_Os01g57230 within 2k away from the gene body Primary panicle branch number chr9 22677956 Os09g0551500 LOC_Os09g37890 within 2k away from the gene body Protein content chr9 23239657 Os09g0563800 LOC_Os09g39034 hit the non-coding region in a gene Protein content chr10 5787721 Os10g0188300 LOC_Os10g11034 hit the non-coding region in a gene Protein content chr6 5035026 Os06g0199200 LOC_Os06g09890 within 2k away from the gene body Protein content chr3 7278267 Os03g0237100 LOC_Os03g13390 within 2k away from the gene body Protein content chr6 24746851 Os06g0603400 LOC_Os06g40110 within 2k away from the gene body Seed color chr5 28305671 Os05g0566900 LOC_Os05g49180 hit the cds Seed color chr1 35004948 Os01g0784700 LOC_Os01g57560 hit the non-coding region in a gene Seed color chr3 28341856 Os03g0690500 LOC_Os03g48430 hit the non-coding region in a gene Seed color chr10 22242327 Os10g0554800 LOC_Os10g40614 within 2k away from the gene body Seed color chr3 7544944 Os03g0241800 LOC_Os03g13830 within 2k away from the gene body Seed color chr12 17828442 Os12g0481100 LOC_Os12g29660 within 2k away from the gene body Seed color chr4 20535450 Os04g0415050 - within 2k away from the gene body Seed length chr3 14736658 Os03g0363900 LOC_Os03g24900 hit the cds Seed length chr3 16626582 Os03g0397700 LOC_Os03g27990 hit the cds Seed length chr12 19271159 Os12g0502100 LOC_Os12g31790 hit the non-coding region in a gene Seed length chr5 28571010 Os05g0571700 LOC_Os05g49680 within 2k away from the gene body Seed length chr3 17847631 Os03g0415200 LOC_Os03g30130 within 2k away from the gene body Seed length chr12 25750068 Os12g0604700 LOC_Os12g41180 within 2k away from the gene body Seed length chr5 5519907 Os05g0190300 LOC_Os05g09740 within 2k away from the gene body Seed length chr3 18649761 Os03g0429900 LOC_Os03g31560 within 2k away from the gene body Seed length/width ratio chr8 24292850 Os08g0489800 LOC_Os08g38200 hit the cds Seed length/width ratio chr6 23172203 Os06g0574400 LOC_Os06g37640 hit the non-coding region in a gene Seed length/width ratio chr11 3574191 Os11g0172800 LOC_Os11g07180 hit the non-coding region in a gene Seed length/width ratio chr3 21972174 Os03g0578900 LOC_Os03g38210 within 2k away from the gene body Seed number per panicle chr2 27165375 Os02g0652000 LOC_Os02g43550 within 2k away from the gene body Seed surface area chr2 30750995 Os02g0719800 LOC_Os02g48790 hit the non-coding region in a gene Seed surface area chr3 17728657 Os03g0413100 LOC_Os03g29980 hit the non-coding region in a gene Seed volume chr2 30493447 Os02g0714200 LOC_Os02g48360 hit the non-coding region in a gene Seed volume chr5 5323440 Os05g0187100 LOC_Os05g09500 within 2k away from the gene body Seed volume chr11 26654367 Os11g0631600 LOC_Os11g41360 within 2k away from the gene body Seed width chr7 22717722 Os07g0553900 LOC_Os07g36820 hit the cds Seed width chr2 25388469 Os02g0617600 LOC_Os02g40454 hit the non-coding region in a gene Seed width chr2 30751739 Os02g0719800 LOC_Os02g48790 hit the non-coding region in a gene Seed width chr3 22028644 Os03g0579800 - hit the non-coding region in a gene Seed width chr5 5378810 Os05g0187800 LOC_Os05g09550 hit the non-coding region in a gene Seed width chr8 15803580 Os08g0346500 LOC_Os08g25820 hit the non-coding region in a gene Seed width chr2 22551598 Os02g0569400 LOC_Os02g36070 within 2k away from the gene body Shattering degree chr2 25025325 Os02g0613200 LOC_Os02g39970 hit the cds Shattering degree chr3 31392925 Os03g0745400 - hit the non-coding region in a gene Shattering degree chr5 898443 Os05g0117300 LOC_Os05g02630 hit the non-coding region in a gene Shattering degree chr11 2231172 Os11g0148700 LOC_Os11g05130 hit the non-coding region in a gene Shattering degree chr10 2319249 Os10g0137700 - within 2k away from the gene body Shattering degree chr8 25498378 Os08g0512400 LOC_Os08g40150 within 2k away from the gene body Spikelet number chr3 436658 Os03g0107500 LOC_Os03g01720 hit the non-coding region in a gene Spikelet number chr10 5976140 Os10g0190900 LOC_Os10g11354 within 2k away from the gene body Tiller number chr1 6840011 Os01g0224400 LOC_Os01g12470 hit the non-coding region in a gene Tiller number chr2 25083473 Os02g0613900 LOC_Os02g40010 hit the non-coding region in a gene Tiller number chr4 3760194 Os04g0154800 LOC_Os04g07110 within 2k away from the gene body Tiller number chr8 25453518 Os08g0511400 LOC_Os08g40060 within 2k away from the gene body Tiller number chr1 4759534 Os01g0188900 LOC_Os01g09370 within 2k away from the gene body