Phenotype and GWAS Information:

Agronomic Traits

Note: All the agronomic trait is from the article Breeding signatures of rice improvement revealed by a genomic variation map from a large germplasm collection.

Metabolic Traits

Note: All the metabolic trait is from the article Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism. Some metabolics have two replications, the second replication is end with '_2', like 'mr1002_2'.

Search Results:

The Yield Distribution in All Population:

Phenotype Information Table:

Note: -9 means missing value.

Cultivar Name Cultivar ID Subpopulation Yield
Sadu-cho C001 Indica I 24.13
Dom_Sufid C002 VI/Aromatic 15.18
Gerdeh C003 Japonica Intermediate 24.54
Li-Jiang-Xin-Tuan-Hei-Gu_ C004 Temperate Japonica 18.82
AZUCENA C005 Tropical Japonica 22.5
Shan-Huang_Zhan-2-1_ C006 Indica Intermediate 13.96
Shan-Huang_Zhan-2-2_ C007 Indica Intermediate 20.44
Swarna C008 Indica Intermediate 6.03
MOROBEREKAN C009 Indica Intermediate 29.62
CYPRESS C010 Tropical Japonica 21.36
MILYANG_23 C011 Indica II 24.11
Tainong67 C012 Temperate Japonica 22.97
N_22 C013 Aus 25.71
M202 C014 Japonica Intermediate 22.39
Dular C015 Aus 23.25
Laoguangtou83 C016 Temperate Japonica 12.43
AnnongwangengB-1 C017 Temperate Japonica 8.94
AnnongwangengB-2 C018 Temperate Japonica 14.89
Aijiaonante C019 Indica I 14.97
Guangluai-4-1 C020 Indica I 21.41
xiangaizao10 C021 Indica I 24.08
JinnanteB C022 Indica I 21.1
Funingzipi C023 Temperate Japonica 27.13
zhenshan97B-1 C024 Indica I 21.54
Qingsiai16B C025 Indica Intermediate 25.69
Weiguo C026 Temperate Japonica 25.89
Dianrui409B C027 Indica Intermediate 27.54
Liaogeng287 C028 Temperate Japonica 25.84
Huhui628 C029 Japonica Intermediate 19.0
88B-1 C030 Indica Intermediate 33.03
88B-2 C031 Indica Intermediate 28.48
Longhuamaohu C032 Temperate Japonica 22.01
Lucaihao C033 Indica I 25.18
Zhonglouyihao1 C034 Temperate Japonica 30.28
Yelicanghua C035 Temperate Japonica 15.55
Shufeng101 C036 Indica Intermediate 28.86
Chengduai3hao C037 Indica I 27.65
Sankecui C038 Indica Intermediate 20.55
Gongju73 C039 Indica I 30.07
Jiabala C040 Indica I 25.01
Taishannuo C041 Indica I 26.12
Guichao2hao C042 Indica Intermediate 27.47
Huke3hao C043 Indica I 22.34
Teqingxuanhui C044 Indica Intermediate 20.22
Huangsiguizhan C045 Indica Intermediate 27.6
Xiangwanxian3hao C046 Indica Intermediate 28.5
Hanmadao-2 C047 Indica I 22.12
Zaoshunonghu6 C048 Temperate Japonica 25.65
Jinyou1hao C049 Indica Intermediate 16.2
Chengnongshuijing C050 Indica II 23.95
PeiC122 C051 Intermediate 24.56
Guihuahuang C052 Temperate Japonica 23.61
Momi C053 Indica Intermediate 27.49
Xiushui115 C054 Temperate Japonica 24.28
Sanbaili C055 Indica I 21.49
Jindao1hao C056 Temperate Japonica 16.88
Dandongludao C057 Japonica Intermediate 18.28
Liusha1hao C058 Indica I 16.26
Bawangbian1 C059 Indica I 24.25
Dongtingwanxian C060 Indica I 25.52
Yangdao2hao C061 Indica II 25.1
WH62 C062 Indica I 14.31
Geng87-304 C063 Temperate Japonica 42.22
Sugeng2hao C064 Temperate Japonica 23.28
Hongwan1hao C065 Indica Intermediate 27.86
Liushizao C066 Indica I 22.28
Muxiqiu C067 Temperate Japonica 25.99
Taizhongxianxuan2 C068 Indica II 31.13
Dangyu5hao C069 Indica II 27.13
Youmangzaogeng C070 Temperate Japonica 16.79
Laohuzhong C071 Temperate Japonica 26.85
Nantehao C072 Indica I 28.47
Esiniu C073 Indica I 15.67
cunsanli C074 Temperate Japonica 17.51
Huangkezaonian C075 Temperate Japonica 28.7
Benbanggu-1 C076 Indica I 18.58
Benbanggu-2 C077 Indica I 14.78
Qitoubaigu C078 Indica Intermediate 18.63
Muguanuo-1 C079 Temperate Japonica 20.06
Hanmadao-1 C080 Indica I 23.69
Heidu4 C081 Indica I 15.53
Gaoyangdiandao C082 Temperate Japonica 29.72
chikenuo C083 Temperate Japonica 20.45
Haobuka C084 Japonica Intermediate 9.1
Shanjiugu C085 Japonica Intermediate 18.64
Fanhaopi C086 Aus 8.53
Lixingeng C087 Temperate Japonica 16.44
Nangaogu-2 C088 Indica I 15.18
Tieganwu C089 Temperate Japonica 15.23
Sanlicun C090 Indica Intermediate 31.86
Meihuanuo-1 C091 Indica I 18.66
Meihuanuo-2 C092 Indica I 18.02
Xiangnuo-2 C093 Temperate Japonica 10.24
Menjiagao1 C094 Indica Intermediate 12.4
Xiaohonggu C095 Indica I 12.28
Jinxibai-1 C096 Indica Intermediate 12.05
Jinbaoyin C097 Indica Intermediate 13.57
Hongainuo C098 Indica Intermediate 15.41
WH099 C099 Indica Intermediate 18.19
WH100 C100 Indica Intermediate 12.15
Babaili C101 Temperate Japonica 15.45
Qiyuexian C102 Indica Intermediate 16.6
Yuyannuo-1 C103 Temperate Japonica 17.56
Mamagu-1 C104 Indica I 13.31
WH105 C105 Indica Intermediate 15.0
Hongkezhenuo C106 Temperate Japonica 12.18
Mowanggunei-2 C107 Indica III 20.04
Mamagu-2 C108 Indica I 16.56
WH109 C109 Indica I 8.97
Xianggu C110 Indica I 20.66
Ximaxian C111 Temperate Japonica 4.41
Jinnante43B C112 Indica I 18.27
Xiangzaoxian7hao C113 Indica Intermediate 12.22
80B C114 Indica Intermediate 22.13
WH115 C115 Indica II 23.74
LimingB C116 Temperate Japonica 27.4
Jiangnongzao1hao C117 Indica Intermediate 27.28
Gu154 C118 Indica II 23.85
Ninghui21 C119 Temperate Japonica 17.49
Shuiyuan300li C120 Temperate Japonica 18.72
XiangaiB C121 Indica Intermediate 37.33
Aituogu151 C122 Indica I 38.68
Taidongludao C123 Tropical Japonica 40.51
menjiading2 C124 Indica Intermediate 19.71
Jiefangxian C125 Indica I 14.01
Baikehualuo C127 Indica I 28.27
Liuyezhan C128 Indica I 37.31
Aihechi C129 Indica Intermediate 38.8
Xiangnuo-1 C130 Temperate Japonica 13.15
Xuanenchangtan C131 Indica I 21.29
Jinzhinuo C132 Indica Intermediate 13.14
Muguanuo-2 C133 Temperate Japonica 23.19
Wuzidui C134 Temperate Japonica 11.19
Xibaizhan C135 Indica I 17.25
Zegu C136 Indica I 21.26
Cungunuo C137 Temperate Japonica 16.62
Lengshuigu C138 Temperate Japonica 13.9
WH139 C139 Indica I 17.37
Wuzuhonggu C140 Indica I 10.51
Nangaogu-1 C141 Indica I 21.38
Mowanggunei-1 C142 Indica III 18.58
Qitougu C143 Indica I 6.52
Huangpinuo C144 Temperate Japonica 11.16
Zhenshan97B C145 Indica I 27.41
Nipponbare C146 Temperate Japonica 20.77
Minghui63 C147 Indica II 27.15
9311 C148 Indica II 26.72
Zhonghua11 C149 Temperate Japonica 27.48
Balilla C150 Temperate Japonica 18.31
Nanjing11 C151 Indica I 24.3
02428 C152 Temperate Japonica 18.94
IRAT109 C153 Tropical Japonica 35.52
Heigeng2hao C154 Temperate Japonica 8.95
Erjiunan1hao C155 Indica I 17.93
ChaoyangyihaoB C156 Indica I 15.13
L301B C157 Indica I 11.06
Guangluai15 C158 Indica I 26.08
ZhuzhenB C159 Indica I 32.72
Baoxie-7B C160 Indica Intermediate 21.27
Gzhenshan97B C161 Indica I 25.21
Nanxiongzaoyou C162 Indica Intermediate 12.92
Zaoshuxianghei C163 Indica II 16.16
IR661-1 C164 Indica II 23.03
Nanjing11-2 C165 Indica I 20.14
Gui630 C166 Indica Intermediate 20.12
76--1 C167 Indica Intermediate 18.49
Xugunuo C168 Indica Intermediate 29.36
Taizhongzailai1 C169 Indica Intermediate 30.26
Xiangwanxian1hao C170 Indica I 22.92
Xingguo C171 Temperate Japonica 22.73
Zhonghua8hao C172 Temperate Japonica 24.85
Aimakang C173 Indica I 19.72
JWR221 C174 Indica II 27.65
Zhengxian232 C175 Indica Intermediate 27.96
Chenwan3hao C176 Indica Intermediate 16.33
Maguzi C177 Temperate Japonica 13.13
Aimi C178 Indica I 23.51
Haobayong1 C179 Temperate Japonica 18.55
Wanlixian C180 Indica I 19.29
Feidongtangdao C181 Temperate Japonica 16.84
Hengxianliangchun C182 Indica I 15.27
Leihuozhan C183 Indica I 13.52
Baikezaohe C184 Indica I 16.07
Haomake(K) C185 Japonica Intermediate 9.56
Sanbangqishiluo C186 Japonica Intermediate 28.61
Niankenuo C187 Temperate Japonica 14.5
Yangkenuo C188 Temperate Japonica 12.13
Putaohuang C189 Temperate Japonica 17.58
Xiangdao C190 Indica I 22.79
Younian C191 Indica I 28.88
Wukezhan C192 Indica Intermediate 11.77
Zhongnong4hao C193 Indica I 22.5
Minbeiwanxian C194 Indica Intermediate 11.93
Hongmisandan C195 Temperate Japonica 8.72
Yuyannuo-2 C196 Temperate Japonica 16.74
Maweinian C197 Indica I 11.31
Zinuo C198 Indica Intermediate 21.4
Beizinuo C199 Indica I 21.81
Biwusheng C200 Indica I 15.08
Yizhixiang C201 Indica Intermediate 24.53
Xiaobaimi C202 Indica I 16.82
Zaoxian240 C203 Indica I 13.12
Mayang_Khang W001 Indica I 22.49
E_B_Gopher W002 Tropical Japonica 11.12
C_5560 W003 Tropical Japonica 23.73
Quinimpol W004 Tropical Japonica 26.55
TAICHU_MOCHI_59 W005 Tropical Japonica 30.8
WC_2811 W006 Tropical Japonica 33.06
Criollo_Chivacoa_2 W007 Tropical Japonica 26.76
Secano_do_Brazil W008 Tropical Japonica 29.29
BERLIN W009 Indica III 30.1
Sel._No._388 W010 Japonica Intermediate 25.72
SHIMIZU_MOCHI W011 Temperate Japonica 30.85
KRASNODARSKIJ_424 W012 Temperate Japonica 11.32
Pergonil_15 W013 Temperate Japonica 31.51
Red_Khosha_Cerma W014 VI/Aromatic 29.41
Safut_Khosha W015 Aus 71.1
NORIN_11 W016 Temperate Japonica 6.03
R_75 W017 Tropical Japonica 24.03
UZ_ROSZ_M38 W018 Temperate Japonica 13.23
H57-3-1 W019 Japonica Intermediate 31.73
IARI_6626 W020 Aus 30.08
Khao_Luang W021 Japonica Intermediate 29.0
C_8429 W022 Tropical Japonica 50.38
Warrangal_Culture_1252 W023 Indica III 42.76
Padi_Pohon_Batu W024 Tropical Japonica 20.07
NC_1/536 W025 Aus 29.24
Won_Son_Zo_No._11 W026 Indica I 46.69
Chacareiro_Uruguay W027 Temperate Japonica 15.93
Doble_Carolina W028 Aus 29.82
Ai_Chueh_Ta_Pai_Ku W029 Indica Intermediate 33.16
Thang_10 W030 Indica Intermediate 42.82
Sipirasikkam W031 Indica I 38.67
TJ W032 Indica I 38.75
PD_46 W033 Indica I 25.69
PATNAI_6 W034 Aus 38.19
K8C-263-3 W035 Indica Intermediate 28.86
Chun_118-33 W036 Indica I 52.97
Manga_Kely_694 W037 Indica Intermediate 26.79
BLUE_STICK W038 Temperate Japonica 43.57
Nam_Dawk_Mai W039 Indica I 48.93
INIAP_7 W040 Indica II 37.75
Onu_B W041 Tropical Japonica 22.38
Red W042 Indica Intermediate 36.42
Dichroa_Alef_Uslkij W043 Indica Intermediate 41.84
BKN_6987-68-14 W044 Indica II 30.48
KUBANETS_508 W045 Temperate Japonica 18.94
IR_9660-48-1-1-2 W046 Indica II 34.03
Jumli_dhan W047 Japonica Intermediate 18.86
N-2703 W048 Aus 30.36
PHUDUGEY W049 Aus 25.26
Ak_Tokhum W050 VI/Aromatic 32.39
RP2151-173-1-8 W051 Indica II 41.35
HB-6-2 W052 Temperate Japonica 22.37
GPNO_1106 W053 Tropical Japonica 23.21
Toga W054 Indica Intermediate 39.47
Ragasu W055 Intermediate 23.26
Tamanishiki W056 Temperate Japonica 32.73
Grassy W057 Tropical Japonica 33.1
Kao_Chio_Lin_Chou W058 Indica I 54.37
Niwahutaw_Mochi W059 Temperate Japonica 28.65
Somewake W060 Temperate Japonica 23.06
Ardito W061 Japonica Intermediate 29.27
NANTON_NO._131 W062 Tropical Japonica 41.03
Vary_Tarva_Osla W063 Japonica Intermediate 25.25
CSORNUJ W064 Temperate Japonica 13.13
R_67 W065 Tropical Japonica 35.81
IR_238 W066 Indica Intermediate 28.08
Mitak W067 Tropical Japonica 33.79
Gazan W068 Temperate Japonica 26.34
99216 W069 Aus 34.34
Shui_Ya_Jien W070 Indica Intermediate 56.93
AKP_4 W071 Indica Intermediate 32.24
SORNAVARI W072 Aus 30.61
IR_2061-214-2-3 W073 Indica II 31.0
TAINUNG_45 W074 Indica Intermediate 36.26
Sapundali_Local W075 Indica Intermediate 49.48
Tauli W076 Aus 35.3
79 W077 VI/Aromatic 36.33
B805D-MR-16-8-3 W078 Indica Intermediate 26.95
A_152 W079 Intermediate 32.29
UZ_ROS_59 W080 Indica I 54.17
Gasym_Hany W081 VI/Aromatic 19.74
Celiaj W082 Temperate Japonica 25.41
CNTLR80076-44-1-1-1 W083 Indica Intermediate 32.77
IR_58614-B-B-8-2 W084 Indica Intermediate 27.97
KECHENGNUO_NO._4 W085 Indica Intermediate 39.59
4484 W086 Indica II 33.73
YOU-I_B W087 Indica I 28.51
CHUNJIANGZAO_NO._1 W088 Temperate Japonica 19.23
Egyptian_Wild_Type W089 Indica III 43.14
C.B._II W090 Aus 52.77
Gallawa W091 Aus 33.09
Karayal W092 Aus 39.43
Srav_Prapay W093 Indica III 27.89
Nang_Bang_Bentre W094 Aus 29.83
DJ_24 W095 Aus 43.35
DJ_102 W096 Aus 38.39
Santhi_990 W097 Intermediate 27.6
UZ_ROS_7-13 W098 Aus 52.36
SL_22-620 W099 Aus 39.03
Spin_Mere W100 Aus 41.25
AMANE W101 Indica Intermediate 43.36
Padi_Tarab_Arab W102 Tropical Japonica 12.67
P_35 W103 Aus 26.82
CAROLINO_164 W104 Aus 24.13
HKG_98 W105 Aus 39.44
Daudzai_Field_Mix W106 Aus 29.99
JP_5 W107 Indica Intermediate 27.58
Hi_Muke W108 Aus 39.54
WIR_911 W109 Temperate Japonica 10.06
Lua_Chua_Chan W110 Tropical Japonica 12.99
Sereno W111 Indica III 29.52
ARC_10633 W112 Indica III 43.85
Simpor W113 Tropical Japonica 31.41
Heo_Trang W114 Indica III 28.55
THAVALU W115 Aus 40.41
WC_10253 W116 Tropical Japonica 29.11
KRASNODARSKIJ_3352 W117 Temperate Japonica 16.21
EMBRAPA_1200 W118 Tropical Japonica 27.03
WAB462-10-3-1 W119 Tropical Japonica 21.24
Bombilla W120 Temperate Japonica 19.56
TCHAMPA W121 Aus 41.53
BHIM_DHAN W122 Japonica Intermediate 25.77
WC_3532 W123 Tropical Japonica 36.97
Kin_Shan_Zim W124 Indica I 29.85
Yong_Chal_Byo W125 Intermediate 25.54
Pan_Ju W126 Indica I 59.9
Buphopa W127 Japonica Intermediate 29.53
TAINO_38 W128 Intermediate 46.26
2 W129 VI/Aromatic 62.08
LUSITANO W130 Temperate Japonica 22.98
IARI_6621 W131 Aus 37.53
Hsin_Hsing_Pai_Ku W132 Indica I 47.57
TD_70 W133 Indica Intermediate 37.09
Dara W134 Aus 49.84
Shimla_Early W135 Indica Intermediate 49.14
LA_PLATA_GENA_F.A. W136 VI/Aromatic 21.79
CM1;_HAIPONG W137 Indica Intermediate 34.35
4595 W138 Indica I 64.86
A_5 W139 Temperate Japonica 20.34
Ittikulama W140 Aus 38.4
DNJ_179 W141 Aus 37.55
DNJ_121 W142 Aus 27.19
Jyanak W143 Japonica Intermediate 13.77
Ao_Chiu_2_Hao W144 Indica I 39.58
GUYANE_1 W145 Indica Intermediate 25.75
10340 W146 Indica I 64.45
BR11 W147 Indica Intermediate 65.87
BR24 W148 Indica Intermediate 53.04
93072 W149 Indica Intermediate 45.4
108S W150 Indica II 36.18
C418 W151 Indica II 51.34
CDR22 W152 Indica II 47.87
Chenghui448 W153 Indica II 48.48
Fengaizhan W154 Indica II 60.98
Gang46B W155 Indica Intermediate 44.83
Gumei2hao W156 Indica I 40.36
Huajingxian74 W157 Indica Intermediate 46.17
M3122 W158 Intermediate 51.52
R644 W159 Indica II 48.61
Shennong265 W160 Temperate Japonica 42.64
Y134 W161 Indica II 49.92
Yuanjing7 W162 Temperate Japonica 74.84
Yuexiangzhan W163 Indica Intermediate 78.87
Zaoxian14 W164 Indica Intermediate 56.01
Zhong413 W165 Indica Intermediate 52.53
Zhongyouzao81 W166 Indica Intermediate 66.81
Zihui100 W167 Indica Intermediate 45.93
Bg90-2 W168 Indica II 42.14
IR72 W169 Indica II 47.84
PR106 W170 Indica II 36.14
TKM9 W171 Indica Intermediate 36.34
Amo13_(Sana) W172 Indica II 40.94
Khazar W173 Tropical Japonica 35.23
Gayabyeo W174 Indica II 41.87
Iksan438 W175 Intermediate 32.07
Milyang23 W176 Indica II 49.18
MR185 W177 Indica II 39.95
Manawthukha W178 Indica III 30.93
Shwe_Thwe_Yin_Hyv W179 Indica II 38.47
Bg300 W180 Indica Intermediate 37.7
Bg94-1 W181 Indica Intermediate 67.62
CR203 W182 Indica II 50.03
OM997 W183 Indica II 41.2
PSB_RC_28 W184 Indica II 45.16
PSB_RC_66 W185 Indica II 43.83
TEQING W186 Indica Intermediate -9.0
IR68552-55-3-2 W187 Indica Intermediate -9.0
IR66897B W188 Indica II 51.46
IR58025B W189 Indica II 47.6
Pusa_(Basmatil) W191 Intermediate 29.17
ASD16 W192 Intermediate 36.02
Dianjing W193 Temperate Japonica 43.01
F6 W194 Indica II 53.24
452 W195 Indica II 68.19
Ai-Zi-DAO W197 Indica II 64.98
Babaomi W198 Indica Intermediate 39.96
Diantun502 W199 Indica Intermediate 48.37
Heiheaihui W200 Indica Intermediate 48.88
Jiangxisimiao W201 Indica Intermediate 51.03
Laohudao W202 Indica Intermediate 52.28
Linjintangdao W203 Indica Intermediate 55.14
Mengguandamagu W204 Indica I 50.0
Pengshantieganzhan W205 Indica I 44.07
Wumanggaonuo W206 Indica Intermediate 32.66
Yunguang8hao W207 Temperate Japonica 42.97
Zhongchao123 W208 Temperate Japonica 45.72
Gizal159 W209 Temperate Japonica 55.34
Khao_Daeng W210 Indica I 92.66
Basmati370 W211 Indica II 25.22
Bhavani W212 Indica Intermediate 66.98
IR50 W213 Indica Intermediate 31.38
Jhona349 W214 Aus 40.57
Karnal_Local W215 Aus 53.44
Type3 W216 Indica II 47.57
IRAT352 W217 Indica Intermediate 20.5
TB154E-TB-2 W218 Indica Intermediate 22.26
Domsiah W219 VI/Aromatic 35.0
Tarommolai1 W220 VI/Aromatic 42.36
MR77_(seberang) W221 Indica Intermediate 25.91
ir6 W222 Indica II 55.67
At354 W223 Indica II 52.59
BG304 W224 Indica II 45.4
Lemont W225 Tropical Japonica 28.37
M401 W226 Temperate Japonica 34.59
OM1706 W227 Indica Intermediate 50.01
OM1723 W228 Indica II 41.88
X21 W229 Indica II 55.19
X22 W230 Indica II 25.57
X23 W231 Indica II 40.06
C70 W233 Indica Intermediate 36.4
Q5 W234 Indica Intermediate 43.17
Suiyangnian W235 Indica I 56.42
Pokhreli W236 Indica II 50.76
Govnd W237 Indica II 72.55
UPR191-66 W238 Indica II 36.2
ASD18 W239 Indica Intermediate 54.41
TGMS29 W240 Indica Intermediate 45.03
Phalguna W241 Indica II 51.51
Ajaya W242 Indica Intermediate 44.32
Dodda W243 Indica II 53.58
Palung_2 W244 Indica II 38.07
TKM6 W245 Indica Intermediate 12.75
RUSTYLATE/Zhong_413 W246 Indica Intermediate 51.53
Yenfangghu W247 Indica I 49.59
Heimichut W248 Indica I 34.34
Teksichut W249 Temperate Japonica 30.02
Eiko W250 Temperate Japonica 25.87
RUBIO W251 Tropical Japonica 29.24
SADRI_RICE_1 W252 VI/Aromatic 34.15
Sereendan_Kuning W253 Tropical Japonica 43.12
SAI-BUI-BAO W254 Tropical Japonica 33.2
ZIRI W255 VI/Aromatic 49.88
Dacca6 W256 VI/Aromatic 28.73
Latisai1 W257 Tropical Japonica 29.57
Amareles W258 VI/Aromatic 33.53
Up15 W259 Indica II 57.48
Uz-Rosz_275 W260 Tropical Japonica 32.8
Ginga W261 Intermediate 37.25
Bintapan W262 Indica I 42.45
SADAJIRA-19-303 W263 Indica Intermediate 32.59
CHOROFA W264 Indica Intermediate 44.62
La110 W265 Indica Intermediate 43.5
Yunjiang35 W266 Indica III -9.0
Yunhui72 W267 Indica Intermediate 49.72
Wudadaozhong W268 Indica Intermediate 47.52
IR65600-27-1-2-2 W269 Indica Intermediate 53.08
Yetuozai W270 Indica Intermediate 43.21
P59279 W271 Indica Intermediate 48.11
Tsao_wan_ching W272 Indica Intermediate 49.72
Anambae_ndanggalasi W273 Tropical Japonica 35.19
Er_chiu_ching W274 Indica I 27.06
Heen_goda_wee W275 Tropical Japonica 28.65
Pathma_wee W276 Indica III 42.41
Lakkhi_kajal W277 Aus 32.52
Moisdol W278 Aus 39.45
Jabor_sail W279 Aus 43.34
Sada_solay W280 Aus 49.27
Sholay W281 Temperate Japonica 23.82
Ma_ba_you_zhan W282 Indica Intermediate -9.0
Daegujo W283 Temperate Japonica 11.96
Paikasa W284 Tropical Japonica 19.0
Uwi W285 Tropical Japonica 24.48
Garia W286 Aus 31.4
AUS_449 W287 Aus 40.88
Dourado_Precoce W288 Tropical Japonica 26.15
IR_661-1-140-3-117 W289 Indica II 31.8
Aichi_Asahi W290 Temperate Japonica 39.86
IR_2071-625-1-252 W291 Indica II -9.0
Khoia_boro W292 Aus 38.98
IR_8 W293 Indica II 41.4
LABELLE W294 Intermediate -9.0
LEBONNET W295 Indica II 47.32
AUS_371 W296 Aus 34.9
AUS_373 W297 Aus 24.91
IR_36 W298 Indica II 39.21
JAYA W299 Indica Intermediate 36.96
NEW_BONNET W300 Tropical Japonica 29.13
IR_64 W301 Indica II 38.48
KUNTLAN W302 Tropical Japonica 46.07
British_Honduras_Creole W303 Tropical Japonica 32.36
CPSLO_17 W304 Intermediate 25.07
AKITAKOMACHI W305 Temperate Japonica 22.28
BASMATI_385 W306 VI/Aromatic 28.41
AGNO_(PSBRC28) W307 Indica II -9.0
PSBRC82 W308 Indica II 30.02
NSICRC122 W309 Indica II 50.16
BRRI_DHAN_29 W310 Indica Intermediate 54.69
PR_116 W311 Indica II 53.65
CIGEULIS W312 Indica II 55.13
OM_2517 W313 Indica II 42.46
BRRI_DHAN_28 W314 Indica II 45.76
CIBOGO W315 Indica II 29.4
NEDA W316 Indica II 37.4
CIHERANG W317 Indica II 42.61
Qiuqianbai W318 Indica I 61.22
Guangkexiangnuo W319 Temperate Japonica 12.88
Wenxiangnuo W320 Indica Intermediate 13.07
Laozaogu W321 Indica III 30.24
Lengshuinuo W322 Indica Intermediate 36.91
Feienuo2 W323 Japonica Intermediate 19.09
Zimangfeie W324 Japonica Intermediate 20.18
Guantuibaihe W325 Temperate Japonica 10.7
Haolvguangnian W326 Japonica Intermediate 24.96
JinghuB W327 Temperate Japonica 35.33
Sibeitichao6 W328 Intermediate 7.69
GPNO_5055 W329 Tropical Japonica 34.71
ASWINA_330 W330 Aus 33.92

GWAS Results:

Note: If the P-value of Linear Regression (LR) or Linear Mixed Model (LMM) ≤ 1e-5 or the rank ≤ 20000, the results are saved. Only the LMM results are plotted below.

Significant Candidate Loci (Lead SNP):

Variation IDVariation ID V6ChromosomePositionLR P-value LMM P-value
vg1021348723 sf1021277201 10 21348723 1.28E-25 2.68E-07
vg0103966667 sf0103965667 1 3966667 9.99E-24 NA
vg0828073239 sf0828070525 8 28073239 1.80E-23 NA
vg1002090270 sf1002089247 10 2090270 7.35E-23 NA
vg0624681286 sf0624680289 6 24681286 9.54E-23 1.13E-06
vg0123227054 sf0123226010 1 23227054 1.35E-22 NA
vg0101824220 sf0101823220 1 1824220 4.00E-22 1.53E-06
vg0326795211 sf0326788265 3 26795211 4.13E-20 NA
vg0827013973 sf0827011259 8 27013973 6.44E-19 NA
vg0121868877 sf0121867832 1 21868877 NA 2.81E-07
vg0624467444 sf0624466447 6 24467444 NA 3.95E-07
vg0212604991 sf0212604987 2 12604991 NA 1.45E-06
vg0233306848 sf0233300979 2 33306848 NA 1.62E-06
vg0624893517 sf0624892520 6 24893517 NA 1.87E-06
vg0233612032 sf0233606163 2 33612032 NA 2.32E-06
vg0922675974 sf0922675493 9 22675974 NA 2.69E-06
vg0307718560 sf0307717498 3 7718560 NA 3.89E-06
vg0431430568 sf0431245466 4 31430568 NA 7.50E-06