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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 Grain weight Distribution in All Population:

Phenotype Information Table:

Note: -9 means missing value.

Cultivar Name Cultivar ID Subpopulation Grain weight
Sadu-cho C001 Indica I 21.6
Dom_Sufid C002 VI/Aromatic 22.02
Gerdeh C003 Japonica Intermediate 25.75
Li-Jiang-Xin-Tuan-Hei-Gu_ C004 Temperate Japonica 22.08
AZUCENA C005 Tropical Japonica 28.98
Shan-Huang_Zhan-2-1_ C006 Indica Intermediate 15.55
Shan-Huang_Zhan-2-2_ C007 Indica Intermediate 15.21
Swarna C008 Indica Intermediate 14.91
MOROBEREKAN C009 Indica Intermediate 22.85
CYPRESS C010 Tropical Japonica 21.18
MILYANG_23 C011 Indica II 23.0
Tainong67 C012 Temperate Japonica 18.18
N_22 C013 Aus 19.04
M202 C014 Japonica Intermediate 22.97
Dular C015 Aus 23.46
Laoguangtou83 C016 Temperate Japonica 17.12
AnnongwangengB-1 C017 Temperate Japonica 20.9
AnnongwangengB-2 C018 Temperate Japonica 17.85
Aijiaonante C019 Indica I 20.85
Guangluai-4-1 C020 Indica I 22.12
xiangaizao10 C021 Indica I 19.24
JinnanteB C022 Indica I 17.83
Funingzipi C023 Temperate Japonica 20.59
zhenshan97B-1 C024 Indica I 21.19
Qingsiai16B C025 Indica Intermediate 20.8
Weiguo C026 Temperate Japonica 22.17
Dianrui409B C027 Indica Intermediate 22.93
Liaogeng287 C028 Temperate Japonica 23.47
Huhui628 C029 Japonica Intermediate 17.76
88B-1 C030 Indica Intermediate 21.8
88B-2 C031 Indica Intermediate 21.22
Longhuamaohu C032 Temperate Japonica 26.32
Lucaihao C033 Indica I 21.69
Zhonglouyihao1 C034 Temperate Japonica 20.3
Yelicanghua C035 Temperate Japonica 21.81
Shufeng101 C036 Indica Intermediate 26.48
Chengduai3hao C037 Indica I 23.07
Sankecui C038 Indica Intermediate 22.26
Gongju73 C039 Indica I 23.95
Jiabala C040 Indica I 21.86
Taishannuo C041 Indica I 22.96
Guichao2hao C042 Indica Intermediate 23.42
Huke3hao C043 Indica I 25.71
Teqingxuanhui C044 Indica Intermediate 22.63
Huangsiguizhan C045 Indica Intermediate 16.7
Xiangwanxian3hao C046 Indica Intermediate 21.94
Hanmadao-2 C047 Indica I 22.72
Zaoshunonghu6 C048 Temperate Japonica 25.14
Jinyou1hao C049 Indica Intermediate 23.92
Chengnongshuijing C050 Indica II 24.93
PeiC122 C051 Intermediate 24.95
Guihuahuang C052 Temperate Japonica 27.09
Momi C053 Indica Intermediate 24.77
Xiushui115 C054 Temperate Japonica 26.84
Sanbaili C055 Indica I 23.17
Jindao1hao C056 Temperate Japonica 25.07
Dandongludao C057 Japonica Intermediate 18.83
Liusha1hao C058 Indica I 22.03
Bawangbian1 C059 Indica I 23.66
Dongtingwanxian C060 Indica I 21.68
Yangdao2hao C061 Indica II 25.7
WH62 C062 Indica I 28.92
Geng87-304 C063 Temperate Japonica 19.8
Sugeng2hao C064 Temperate Japonica 23.65
Hongwan1hao C065 Indica Intermediate 22.68
Liushizao C066 Indica I 19.43
Muxiqiu C067 Temperate Japonica 20.18
Taizhongxianxuan2 C068 Indica II 20.49
Dangyu5hao C069 Indica II 24.21
Youmangzaogeng C070 Temperate Japonica 22.09
Laohuzhong C071 Temperate Japonica 26.08
Nantehao C072 Indica I 23.67
Esiniu C073 Indica I 19.28
cunsanli C074 Temperate Japonica 30.35
Huangkezaonian C075 Temperate Japonica 22.4
Benbanggu-1 C076 Indica I 24.35
Benbanggu-2 C077 Indica I 21.51
Qitoubaigu C078 Indica Intermediate 23.95
Muguanuo-1 C079 Temperate Japonica 21.12
Hanmadao-1 C080 Indica I 22.58
Heidu4 C081 Indica I 21.83
Gaoyangdiandao C082 Temperate Japonica 23.83
chikenuo C083 Temperate Japonica 23.46
Haobuka C084 Japonica Intermediate 41.48
Shanjiugu C085 Japonica Intermediate 25.52
Fanhaopi C086 Aus 21.76
Lixingeng C087 Temperate Japonica 24.27
Nangaogu-2 C088 Indica I 22.39
Tieganwu C089 Temperate Japonica 20.57
Sanlicun C090 Indica Intermediate 24.25
Meihuanuo-1 C091 Indica I 21.35
Meihuanuo-2 C092 Indica I 21.18
Xiangnuo-2 C093 Temperate Japonica 22.87
Menjiagao1 C094 Indica Intermediate 19.99
Xiaohonggu C095 Indica I 22.23
Jinxibai-1 C096 Indica Intermediate 22.59
Jinbaoyin C097 Indica Intermediate 21.04
Hongainuo C098 Indica Intermediate 21.07
WH099 C099 Indica Intermediate 22.67
WH100 C100 Indica Intermediate 23.54
Babaili C101 Temperate Japonica 21.04
Qiyuexian C102 Indica Intermediate 19.36
Yuyannuo-1 C103 Temperate Japonica 25.56
Mamagu-1 C104 Indica I 21.45
WH105 C105 Indica Intermediate 21.17
Hongkezhenuo C106 Temperate Japonica 17.61
Mowanggunei-2 C107 Indica III 22.82
Mamagu-2 C108 Indica I 25.09
WH109 C109 Indica I 23.49
Xianggu C110 Indica I 23.22
Ximaxian C111 Temperate Japonica 15.24
Jinnante43B C112 Indica I 16.0
Xiangzaoxian7hao C113 Indica Intermediate 16.6
80B C114 Indica Intermediate 22.24
WH115 C115 Indica II 21.47
LimingB C116 Temperate Japonica 20.1
Jiangnongzao1hao C117 Indica Intermediate 25.42
Gu154 C118 Indica II 19.92
Ninghui21 C119 Temperate Japonica 19.36
Shuiyuan300li C120 Temperate Japonica 20.78
XiangaiB C121 Indica Intermediate 24.27
Aituogu151 C122 Indica I 21.81
Taidongludao C123 Tropical Japonica 31.08
menjiading2 C124 Indica Intermediate 23.58
Jiefangxian C125 Indica I 25.55
Baikehualuo C127 Indica I 23.22
Liuyezhan C128 Indica I 24.09
Aihechi C129 Indica Intermediate 23.89
Xiangnuo-1 C130 Temperate Japonica 22.14
Xuanenchangtan C131 Indica I 19.54
Jinzhinuo C132 Indica Intermediate 26.83
Muguanuo-2 C133 Temperate Japonica 22.27
Wuzidui C134 Temperate Japonica 19.34
Xibaizhan C135 Indica I 19.13
Zegu C136 Indica I 20.49
Cungunuo C137 Temperate Japonica 30.57
Lengshuigu C138 Temperate Japonica 25.47
WH139 C139 Indica I 21.96
Wuzuhonggu C140 Indica I 20.35
Nangaogu-1 C141 Indica I 22.09
Mowanggunei-1 C142 Indica III 20.43
Qitougu C143 Indica I 25.61
Huangpinuo C144 Temperate Japonica 25.69
Zhenshan97B C145 Indica I 23.14
Nipponbare C146 Temperate Japonica 21.68
Minghui63 C147 Indica II 26.96
9311 C148 Indica II 27.93
Zhonghua11 C149 Temperate Japonica 25.86
Balilla C150 Temperate Japonica 25.67
Nanjing11 C151 Indica I 21.9
02428 C152 Temperate Japonica 23.93
IRAT109 C153 Tropical Japonica 30.41
Heigeng2hao C154 Temperate Japonica 14.01
Erjiunan1hao C155 Indica I 19.16
ChaoyangyihaoB C156 Indica I 19.73
L301B C157 Indica I 18.7
Guangluai15 C158 Indica I 21.41
ZhuzhenB C159 Indica I 26.88
Baoxie-7B C160 Indica Intermediate 20.64
Gzhenshan97B C161 Indica I 26.95
Nanxiongzaoyou C162 Indica Intermediate 22.0
Zaoshuxianghei C163 Indica II 23.98
IR661-1 C164 Indica II 24.96
Nanjing11-2 C165 Indica I 22.86
Gui630 C166 Indica Intermediate 22.5
76--1 C167 Indica Intermediate 24.64
Xugunuo C168 Indica Intermediate 24.58
Taizhongzailai1 C169 Indica Intermediate 23.18
Xiangwanxian1hao C170 Indica I 22.38
Xingguo C171 Temperate Japonica 24.1
Zhonghua8hao C172 Temperate Japonica 19.76
Aimakang C173 Indica I 22.77
JWR221 C174 Indica II 27.66
Zhengxian232 C175 Indica Intermediate 20.9
Chenwan3hao C176 Indica Intermediate 24.13
Maguzi C177 Temperate Japonica 21.11
Aimi C178 Indica I 22.05
Haobayong1 C179 Temperate Japonica 20.05
Wanlixian C180 Indica I 23.92
Feidongtangdao C181 Temperate Japonica 25.98
Hengxianliangchun C182 Indica I 23.02
Leihuozhan C183 Indica I 26.12
Baikezaohe C184 Indica I 24.83
Haomake(K) C185 Japonica Intermediate 23.36
Sanbangqishiluo C186 Japonica Intermediate 29.77
Niankenuo C187 Temperate Japonica 22.91
Yangkenuo C188 Temperate Japonica 22.23
Putaohuang C189 Temperate Japonica 24.64
Xiangdao C190 Indica I 19.97
Younian C191 Indica I 22.35
Wukezhan C192 Indica Intermediate 21.96
Zhongnong4hao C193 Indica I 19.75
Minbeiwanxian C194 Indica Intermediate 23.06
Hongmisandan C195 Temperate Japonica 16.71
Yuyannuo-2 C196 Temperate Japonica 23.32
Maweinian C197 Indica I 22.36
Zinuo C198 Indica Intermediate 22.12
Beizinuo C199 Indica I 22.55
Biwusheng C200 Indica I 21.39
Yizhixiang C201 Indica Intermediate 18.93
Xiaobaimi C202 Indica I 20.8
Zaoxian240 C203 Indica I 20.18
Mayang_Khang W001 Indica I 25.31
E_B_Gopher W002 Tropical Japonica 22.59
C_5560 W003 Tropical Japonica 29.0
Quinimpol W004 Tropical Japonica 25.99
TAICHU_MOCHI_59 W005 Tropical Japonica 19.12
WC_2811 W006 Tropical Japonica 28.35
Criollo_Chivacoa_2 W007 Tropical Japonica 25.61
Secano_do_Brazil W008 Tropical Japonica 23.93
BERLIN W009 Indica III 26.08
Sel._No._388 W010 Japonica Intermediate 22.71
SHIMIZU_MOCHI W011 Temperate Japonica 25.41
KRASNODARSKIJ_424 W012 Temperate Japonica 30.31
Pergonil_15 W013 Temperate Japonica 27.34
Red_Khosha_Cerma W014 VI/Aromatic 22.18
Safut_Khosha W015 Aus 27.22
NORIN_11 W016 Temperate Japonica 22.48
R_75 W017 Tropical Japonica 26.25
UZ_ROSZ_M38 W018 Temperate Japonica 23.74
H57-3-1 W019 Japonica Intermediate 24.64
IARI_6626 W020 Aus 14.96
Khao_Luang W021 Japonica Intermediate 36.65
C_8429 W022 Tropical Japonica 27.26
Warrangal_Culture_1252 W023 Indica III 19.5
Padi_Pohon_Batu W024 Tropical Japonica 22.16
NC_1/536 W025 Aus 22.02
Won_Son_Zo_No._11 W026 Indica I 24.1
Chacareiro_Uruguay W027 Temperate Japonica 21.78
Doble_Carolina W028 Aus 17.59
Ai_Chueh_Ta_Pai_Ku W029 Indica Intermediate 19.94
Thang_10 W030 Indica Intermediate 21.34
Sipirasikkam W031 Indica I 19.55
TJ W032 Indica I 21.2
PD_46 W033 Indica I 23.4
PATNAI_6 W034 Aus 23.1
K8C-263-3 W035 Indica Intermediate 23.44
Chun_118-33 W036 Indica I 23.06
Manga_Kely_694 W037 Indica Intermediate 27.85
BLUE_STICK W038 Temperate Japonica 20.96
Nam_Dawk_Mai W039 Indica I 26.83
INIAP_7 W040 Indica II 30.97
Onu_B W041 Tropical Japonica 26.31
Red W042 Indica Intermediate 23.41
Dichroa_Alef_Uslkij W043 Indica Intermediate 22.77
BKN_6987-68-14 W044 Indica II 26.88
KUBANETS_508 W045 Temperate Japonica 29.56
IR_9660-48-1-1-2 W046 Indica II 24.4
Jumli_dhan W047 Japonica Intermediate 23.66
N-2703 W048 Aus 23.01
PHUDUGEY W049 Aus 14.12
Ak_Tokhum W050 VI/Aromatic 28.39
RP2151-173-1-8 W051 Indica II 24.74
HB-6-2 W052 Temperate Japonica 30.65
GPNO_1106 W053 Tropical Japonica 26.72
Toga W054 Indica Intermediate 21.92
Ragasu W055 Intermediate 26.76
Tamanishiki W056 Temperate Japonica 18.13
Grassy W057 Tropical Japonica 29.18
Kao_Chio_Lin_Chou W058 Indica I 23.28
Niwahutaw_Mochi W059 Temperate Japonica 23.55
Somewake W060 Temperate Japonica 26.41
Ardito W061 Japonica Intermediate 41.24
NANTON_NO._131 W062 Tropical Japonica 25.7
Vary_Tarva_Osla W063 Japonica Intermediate 34.53
CSORNUJ W064 Temperate Japonica 22.25
R_67 W065 Tropical Japonica 27.67
IR_238 W066 Indica Intermediate 19.72
Mitak W067 Tropical Japonica 29.05
Gazan W068 Temperate Japonica 20.99
99216 W069 Aus 17.26
Shui_Ya_Jien W070 Indica Intermediate 22.03
AKP_4 W071 Indica Intermediate 23.04
SORNAVARI W072 Aus 24.34
IR_2061-214-2-3 W073 Indica II 23.46
TAINUNG_45 W074 Indica Intermediate 25.68
Sapundali_Local W075 Indica Intermediate 22.51
Tauli W076 Aus 22.04
79 W077 VI/Aromatic 26.92
B805D-MR-16-8-3 W078 Indica Intermediate 24.69
A_152 W079 Intermediate 27.01
UZ_ROS_59 W080 Indica I 24.56
Gasym_Hany W081 VI/Aromatic 27.13
Celiaj W082 Temperate Japonica 29.65
CNTLR80076-44-1-1-1 W083 Indica Intermediate 27.1
IR_58614-B-B-8-2 W084 Indica Intermediate 23.56
KECHENGNUO_NO._4 W085 Indica Intermediate 25.28
4484 W086 Indica II 25.07
YOU-I_B W087 Indica I 23.06
CHUNJIANGZAO_NO._1 W088 Temperate Japonica 26.61
Egyptian_Wild_Type W089 Indica III 20.82
C.B._II W090 Aus 21.71
Gallawa W091 Aus 17.31
Karayal W092 Aus 22.0
Srav_Prapay W093 Indica III 26.86
Nang_Bang_Bentre W094 Aus 30.32
DJ_24 W095 Aus 23.21
DJ_102 W096 Aus 26.14
Santhi_990 W097 Intermediate 25.3
UZ_ROS_7-13 W098 Aus 22.22
SL_22-620 W099 Aus 21.6
Spin_Mere W100 Aus 18.2
AMANE W101 Indica Intermediate 27.49
Padi_Tarab_Arab W102 Tropical Japonica 25.11
P_35 W103 Aus 21.5
CAROLINO_164 W104 Aus 22.41
HKG_98 W105 Aus 25.76
Daudzai_Field_Mix W106 Aus 24.44
JP_5 W107 Indica Intermediate 28.59
Hi_Muke W108 Aus 19.44
WIR_911 W109 Temperate Japonica 22.16
Lua_Chua_Chan W110 Tropical Japonica 21.3
Sereno W111 Indica III 23.62
ARC_10633 W112 Indica III 24.44
Simpor W113 Tropical Japonica 19.89
Heo_Trang W114 Indica III -9.0
THAVALU W115 Aus 24.38
WC_10253 W116 Tropical Japonica 30.95
KRASNODARSKIJ_3352 W117 Temperate Japonica 29.31
EMBRAPA_1200 W118 Tropical Japonica 37.3
WAB462-10-3-1 W119 Tropical Japonica 24.35
Bombilla W120 Temperate Japonica 31.65
TCHAMPA W121 Aus 26.14
BHIM_DHAN W122 Japonica Intermediate 19.83
WC_3532 W123 Tropical Japonica 27.04
Kin_Shan_Zim W124 Indica I 17.51
Yong_Chal_Byo W125 Intermediate 25.48
Pan_Ju W126 Indica I 21.19
Buphopa W127 Japonica Intermediate 25.56
TAINO_38 W128 Intermediate 24.26
2 W129 VI/Aromatic 22.87
LUSITANO W130 Temperate Japonica 31.05
IARI_6621 W131 Aus 14.47
Hsin_Hsing_Pai_Ku W132 Indica I 20.68
TD_70 W133 Indica Intermediate 24.18
Dara W134 Aus 19.88
Shimla_Early W135 Indica Intermediate 22.36
LA_PLATA_GENA_F.A. W136 VI/Aromatic 22.62
CM1;_HAIPONG W137 Indica Intermediate 30.73
4595 W138 Indica I 20.25
A_5 W139 Temperate Japonica 25.13
Ittikulama W140 Aus 25.09
DNJ_179 W141 Aus 30.06
DNJ_121 W142 Aus 20.92
Jyanak W143 Japonica Intermediate 17.89
Ao_Chiu_2_Hao W144 Indica I 22.09
GUYANE_1 W145 Indica Intermediate 22.47
10340 W146 Indica I 23.86
BR11 W147 Indica Intermediate 24.58
BR24 W148 Indica Intermediate 24.58
93072 W149 Indica Intermediate 27.85
108S W150 Indica II 24.92
C418 W151 Indica II 22.28
CDR22 W152 Indica II 25.31
Chenghui448 W153 Indica II 25.89
Fengaizhan W154 Indica II 17.66
Gang46B W155 Indica Intermediate 22.38
Gumei2hao W156 Indica I 30.99
Huajingxian74 W157 Indica Intermediate 24.07
M3122 W158 Intermediate 39.57
R644 W159 Indica II 22.47
Shennong265 W160 Temperate Japonica 30.0
Y134 W161 Indica II 23.15
Yuanjing7 W162 Temperate Japonica 23.43
Yuexiangzhan W163 Indica Intermediate 19.38
Zaoxian14 W164 Indica Intermediate 21.43
Zhong413 W165 Indica Intermediate 23.5
Zhongyouzao81 W166 Indica Intermediate 24.64
Zihui100 W167 Indica Intermediate 23.92
Bg90-2 W168 Indica II 26.62
IR72 W169 Indica II 21.34
PR106 W170 Indica II 24.83
TKM9 W171 Indica Intermediate 21.85
Amo13_(Sana) W172 Indica II 24.92
Khazar W173 Tropical Japonica 25.35
Gayabyeo W174 Indica II 19.81
Iksan438 W175 Intermediate 24.39
Milyang23 W176 Indica II 23.11
MR185 W177 Indica II 22.86
Manawthukha W178 Indica III 15.95
Shwe_Thwe_Yin_Hyv W179 Indica II 19.1
Bg300 W180 Indica Intermediate 24.07
Bg94-1 W181 Indica Intermediate 24.64
CR203 W182 Indica II 21.86
OM997 W183 Indica II 22.31
PSB_RC_28 W184 Indica II 23.13
PSB_RC_66 W185 Indica II 25.12
TEQING W186 Indica Intermediate -9.0
IR68552-55-3-2 W187 Indica Intermediate -9.0
IR66897B W188 Indica II 20.96
IR58025B W189 Indica II 23.73
Pusa_(Basmatil) W191 Intermediate 23.25
ASD16 W192 Intermediate 22.14
Dianjing W193 Temperate Japonica 28.62
F6 W194 Indica II 20.55
452 W195 Indica II 26.17
Ai-Zi-DAO W197 Indica II 19.14
Babaomi W198 Indica Intermediate 29.08
Diantun502 W199 Indica Intermediate 31.15
Heiheaihui W200 Indica Intermediate 24.42
Jiangxisimiao W201 Indica Intermediate 25.13
Laohudao W202 Indica Intermediate 25.69
Linjintangdao W203 Indica Intermediate 23.92
Mengguandamagu W204 Indica I 21.77
Pengshantieganzhan W205 Indica I 21.67
Wumanggaonuo W206 Indica Intermediate 31.48
Yunguang8hao W207 Temperate Japonica 28.67
Zhongchao123 W208 Temperate Japonica 29.16
Gizal159 W209 Temperate Japonica 23.54
Khao_Daeng W210 Indica I 24.09
Basmati370 W211 Indica II 17.04
Bhavani W212 Indica Intermediate 21.66
IR50 W213 Indica Intermediate 19.28
Jhona349 W214 Aus 23.91
Karnal_Local W215 Aus 23.83
Type3 W216 Indica II 23.9
IRAT352 W217 Indica Intermediate 16.9
TB154E-TB-2 W218 Indica Intermediate 18.54
Domsiah W219 VI/Aromatic 21.92
Tarommolai1 W220 VI/Aromatic 22.47
MR77_(seberang) W221 Indica Intermediate 17.38
ir6 W222 Indica II 24.84
At354 W223 Indica II 26.79
BG304 W224 Indica II 19.69
Lemont W225 Tropical Japonica 24.79
M401 W226 Temperate Japonica 28.08
OM1706 W227 Indica Intermediate 25.32
OM1723 W228 Indica II 28.29
X21 W229 Indica II 23.16
X22 W230 Indica II 22.5
X23 W231 Indica II 23.39
C70 W233 Indica Intermediate 24.53
Q5 W234 Indica Intermediate 24.47
Suiyangnian W235 Indica I 21.16
Pokhreli W236 Indica II 27.19
Govnd W237 Indica II 22.87
UPR191-66 W238 Indica II 21.17
ASD18 W239 Indica Intermediate 19.81
TGMS29 W240 Indica Intermediate 29.03
Phalguna W241 Indica II 24.02
Ajaya W242 Indica Intermediate 25.57
Dodda W243 Indica II 26.25
Palung_2 W244 Indica II 26.09
TKM6 W245 Indica Intermediate 18.41
RUSTYLATE/Zhong_413 W246 Indica Intermediate 24.88
Yenfangghu W247 Indica I 24.34
Heimichut W248 Indica I 21.78
Teksichut W249 Temperate Japonica 36.33
Eiko W250 Temperate Japonica 37.46
RUBIO W251 Tropical Japonica 25.95
SADRI_RICE_1 W252 VI/Aromatic 22.28
Sereendan_Kuning W253 Tropical Japonica 30.2
SAI-BUI-BAO W254 Tropical Japonica 29.24
ZIRI W255 VI/Aromatic 20.24
Dacca6 W256 VI/Aromatic 20.04
Latisai1 W257 Tropical Japonica 28.82
Amareles W258 VI/Aromatic 20.85
Up15 W259 Indica II 26.55
Uz-Rosz_275 W260 Tropical Japonica 26.63
Ginga W261 Intermediate 25.89
Bintapan W262 Indica I 23.59
SADAJIRA-19-303 W263 Indica Intermediate 17.4
CHOROFA W264 Indica Intermediate 24.1
La110 W265 Indica Intermediate 21.59
Yunjiang35 W266 Indica III -9.0
Yunhui72 W267 Indica Intermediate 22.59
Wudadaozhong W268 Indica Intermediate 23.17
IR65600-27-1-2-2 W269 Indica Intermediate 21.27
Yetuozai W270 Indica Intermediate 19.72
P59279 W271 Indica Intermediate 25.21
Tsao_wan_ching W272 Indica Intermediate 26.31
Anambae_ndanggalasi W273 Tropical Japonica 16.0
Er_chiu_ching W274 Indica I 23.41
Heen_goda_wee W275 Tropical Japonica 15.64
Pathma_wee W276 Indica III 23.54
Lakkhi_kajal W277 Aus 26.75
Moisdol W278 Aus 26.29
Jabor_sail W279 Aus 22.89
Sada_solay W280 Aus 26.53
Sholay W281 Temperate Japonica 25.83
Ma_ba_you_zhan W282 Indica Intermediate -9.0
Daegujo W283 Temperate Japonica 26.89
Paikasa W284 Tropical Japonica 15.86
Uwi W285 Tropical Japonica 21.49
Garia W286 Aus 24.26
AUS_449 W287 Aus 22.74
Dourado_Precoce W288 Tropical Japonica 32.01
IR_661-1-140-3-117 W289 Indica II 24.3
Aichi_Asahi W290 Temperate Japonica 23.63
IR_2071-625-1-252 W291 Indica II -9.0
Khoia_boro W292 Aus 20.56
IR_8 W293 Indica II 25.96
LABELLE W294 Intermediate -9.0
LEBONNET W295 Indica II 22.97
AUS_371 W296 Aus 20.37
AUS_373 W297 Aus 18.02
IR_36 W298 Indica II 20.0
JAYA W299 Indica Intermediate 18.74
NEW_BONNET W300 Tropical Japonica 19.47
IR_64 W301 Indica II 23.06
KUNTLAN W302 Tropical Japonica 25.19
British_Honduras_Creole W303 Tropical Japonica 26.79
CPSLO_17 W304 Intermediate 17.24
AKITAKOMACHI W305 Temperate Japonica 25.98
BASMATI_385 W306 VI/Aromatic 19.86
AGNO_(PSBRC28) W307 Indica II -9.0
PSBRC82 W308 Indica II 23.56
NSICRC122 W309 Indica II 23.85
BRRI_DHAN_29 W310 Indica Intermediate 19.36
PR_116 W311 Indica II 23.9
CIGEULIS W312 Indica II 23.56
OM_2517 W313 Indica II 21.36
BRRI_DHAN_28 W314 Indica II 20.63
CIBOGO W315 Indica II 23.8
NEDA W316 Indica II 25.91
CIHERANG W317 Indica II 24.0
Qiuqianbai W318 Indica I 23.02
Guangkexiangnuo W319 Temperate Japonica 24.62
Wenxiangnuo W320 Indica Intermediate 26.82
Laozaogu W321 Indica III 22.66
Lengshuinuo W322 Indica Intermediate 23.37
Feienuo2 W323 Japonica Intermediate 22.04
Zimangfeie W324 Japonica Intermediate 27.6
Guantuibaihe W325 Temperate Japonica 21.49
Haolvguangnian W326 Japonica Intermediate 28.35
JinghuB W327 Temperate Japonica 26.13
Sibeitichao6 W328 Intermediate 34.34
GPNO_5055 W329 Tropical Japonica 26.18
ASWINA_330 W330 Aus 22.66

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
vg0722148224 sf0722147231 7 22148224 3.36E-17 2.14E-08
vg0722095882 sf0722094889 7 22095882 5.42E-17 5.84E-09
vg0719000306 sf0718999313 7 19000306 3.30E-16 3.62E-08
vg1013810944 sf1013739713 10 13810944 7.91E-16 4.64E-06
vg0810152161 sf0810151165 8 10152161 1.14E-15 NA
vg0142082183 sf0142081140 1 42082183 1.30E-15 9.39E-09
vg0718995839 sf0718994846 7 18995839 1.55E-15 5.36E-09
vg0202346298 sf0202346296 2 2346298 4.51E-13 5.83E-09
vg0915941518 sf0915940517 9 15941518 8.74E-13 2.36E-07
vg0432427836 sf0432242727 4 32427836 1.03E-12 6.33E-10
vg0202310606 sf0202310604 2 2310606 1.44E-12 6.35E-09
vg0523308922 sf0523246343 5 23308922 7.71E-12 NA
vg0523572518 sf0523509939 5 23572518 2.34E-10 4.13E-08
vg0630592257 sf0630591259 6 30592257 NA 4.88E-10
vg0428859732 sf0428674588 4 28859732 NA 3.27E-09
vg0903875315 sf0903874315 9 3875315 NA 3.98E-09
vg1221482388 sf1221448935 12 21482388 NA 1.11E-08
vg0718640985 sf0718639992 7 18640985 NA 1.19E-08
vg0904586684 sf0904585684 9 4586684 NA 3.34E-08
vg0316706516 sf0316705162 3 16706516 NA 3.42E-08
vg0900381058 sf0900380058 9 381058 NA 3.75E-08
vg0105774438 sf0105773438 1 5774438 NA 5.10E-08
vg0203899414 sf0203899411 2 3899414 NA 6.44E-08
vg0827604168 sf0827601454 8 27604168 NA 7.70E-08
vg0100975309 sf0100974309 1 975309 NA 1.66E-07
vg1003720429 sf1003719406 10 3720429 NA 2.22E-07
vg0903240255 sf0903239255 9 3240255 NA 2.92E-07
vg0220695059 sf0220689191 2 20695059 NA 1.20E-06
vg0203528644 sf0203528642 2 3528644 NA 6.17E-06