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 thickness Distribution in All Population:

Phenotype Information Table:

Note: -9 means missing value.

Cultivar Name Cultivar ID Subpopulation Grain thickness
Sadu-cho C001 Indica I 1.96
Dom_Sufid C002 VI/Aromatic 1.96
Gerdeh C003 Japonica Intermediate 2.12
Li-Jiang-Xin-Tuan-Hei-Gu_ C004 Temperate Japonica 2.08
AZUCENA C005 Tropical Japonica 1.95
Shan-Huang_Zhan-2-1_ C006 Indica Intermediate 1.69
Shan-Huang_Zhan-2-2_ C007 Indica Intermediate 1.72
Swarna C008 Indica Intermediate 1.75
MOROBEREKAN C009 Indica Intermediate 2.06
CYPRESS C010 Tropical Japonica 1.9
MILYANG_23 C011 Indica II 1.94
Tainong67 C012 Temperate Japonica 1.99
N_22 C013 Aus 1.92
M202 C014 Japonica Intermediate 2.03
Dular C015 Aus 1.99
Laoguangtou83 C016 Temperate Japonica 2.24
AnnongwangengB-1 C017 Temperate Japonica 2.27
AnnongwangengB-2 C018 Temperate Japonica 2.27
Aijiaonante C019 Indica I 1.96
Guangluai-4-1 C020 Indica I 2.1
xiangaizao10 C021 Indica I 1.98
JinnanteB C022 Indica I 1.83
Funingzipi C023 Temperate Japonica 2.0
zhenshan97B-1 C024 Indica I 2.0
Qingsiai16B C025 Indica Intermediate 1.94
Weiguo C026 Temperate Japonica 2.21
Dianrui409B C027 Indica Intermediate 1.99
Liaogeng287 C028 Temperate Japonica 2.2
Huhui628 C029 Japonica Intermediate 2.0
88B-1 C030 Indica Intermediate 2.01
88B-2 C031 Indica Intermediate 1.87
Longhuamaohu C032 Temperate Japonica 2.15
Lucaihao C033 Indica I 2.02
Zhonglouyihao1 C034 Temperate Japonica 2.01
Yelicanghua C035 Temperate Japonica 2.04
Shufeng101 C036 Indica Intermediate 2.04
Chengduai3hao C037 Indica I 2.02
Sankecui C038 Indica Intermediate 2.04
Gongju73 C039 Indica I 2.0
Jiabala C040 Indica I 1.96
Taishannuo C041 Indica I 1.98
Guichao2hao C042 Indica Intermediate 2.18
Huke3hao C043 Indica I 1.98
Teqingxuanhui C044 Indica Intermediate 2.0
Huangsiguizhan C045 Indica Intermediate 1.81
Xiangwanxian3hao C046 Indica Intermediate 1.9
Hanmadao-2 C047 Indica I 2.03
Zaoshunonghu6 C048 Temperate Japonica 2.3
Jinyou1hao C049 Indica Intermediate 1.94
Chengnongshuijing C050 Indica II 1.87
PeiC122 C051 Intermediate 1.98
Guihuahuang C052 Temperate Japonica 2.29
Momi C053 Indica Intermediate 1.91
Xiushui115 C054 Temperate Japonica 2.17
Sanbaili C055 Indica I 2.0
Jindao1hao C056 Temperate Japonica 2.31
Dandongludao C057 Japonica Intermediate 2.11
Liusha1hao C058 Indica I 1.99
Bawangbian1 C059 Indica I 2.03
Dongtingwanxian C060 Indica I 1.94
Yangdao2hao C061 Indica II 1.99
WH62 C062 Indica I 2.27
Geng87-304 C063 Temperate Japonica 2.11
Sugeng2hao C064 Temperate Japonica 2.2
Hongwan1hao C065 Indica Intermediate 2.05
Liushizao C066 Indica I 2.08
Muxiqiu C067 Temperate Japonica 1.9
Taizhongxianxuan2 C068 Indica II 1.88
Dangyu5hao C069 Indica II 1.94
Youmangzaogeng C070 Temperate Japonica 2.22
Laohuzhong C071 Temperate Japonica 2.11
Nantehao C072 Indica I 2.08
Esiniu C073 Indica I 1.89
cunsanli C074 Temperate Japonica 2.11
Huangkezaonian C075 Temperate Japonica 2.33
Benbanggu-1 C076 Indica I 2.16
Benbanggu-2 C077 Indica I 2.01
Qitoubaigu C078 Indica Intermediate 2.07
Muguanuo-1 C079 Temperate Japonica 2.13
Hanmadao-1 C080 Indica I 2.01
Heidu4 C081 Indica I 2.03
Gaoyangdiandao C082 Temperate Japonica 2.19
chikenuo C083 Temperate Japonica 2.07
Haobuka C084 Japonica Intermediate 2.43
Shanjiugu C085 Japonica Intermediate 2.22
Fanhaopi C086 Aus 1.93
Lixingeng C087 Temperate Japonica 2.14
Nangaogu-2 C088 Indica I 2.2
Tieganwu C089 Temperate Japonica 2.02
Sanlicun C090 Indica Intermediate 2.04
Meihuanuo-1 C091 Indica I 1.98
Meihuanuo-2 C092 Indica I 1.94
Xiangnuo-2 C093 Temperate Japonica 2.01
Menjiagao1 C094 Indica Intermediate 2.04
Xiaohonggu C095 Indica I 2.02
Jinxibai-1 C096 Indica Intermediate 2.02
Jinbaoyin C097 Indica Intermediate 1.82
Hongainuo C098 Indica Intermediate 1.94
WH099 C099 Indica Intermediate 2.01
WH100 C100 Indica Intermediate 1.97
Babaili C101 Temperate Japonica 2.09
Qiyuexian C102 Indica Intermediate 1.99
Yuyannuo-1 C103 Temperate Japonica 2.2
Mamagu-1 C104 Indica I 1.95
WH105 C105 Indica Intermediate 1.96
Hongkezhenuo C106 Temperate Japonica 1.97
Mowanggunei-2 C107 Indica III 2.06
Mamagu-2 C108 Indica I 2.18
WH109 C109 Indica I 1.92
Xianggu C110 Indica I 1.96
Ximaxian C111 Temperate Japonica 1.93
Jinnante43B C112 Indica I 1.91
Xiangzaoxian7hao C113 Indica Intermediate 1.9
80B C114 Indica Intermediate 1.94
WH115 C115 Indica II 1.96
LimingB C116 Temperate Japonica 2.15
Jiangnongzao1hao C117 Indica Intermediate 2.11
Gu154 C118 Indica II 1.82
Ninghui21 C119 Temperate Japonica 1.98
Shuiyuan300li C120 Temperate Japonica 2.28
XiangaiB C121 Indica Intermediate 2.03
Aituogu151 C122 Indica I 2.0
Taidongludao C123 Tropical Japonica 2.45
menjiading2 C124 Indica Intermediate 2.02
Jiefangxian C125 Indica I 2.25
Baikehualuo C127 Indica I 2.04
Liuyezhan C128 Indica I 2.02
Aihechi C129 Indica Intermediate 1.98
Xiangnuo-1 C130 Temperate Japonica 1.96
Xuanenchangtan C131 Indica I 1.93
Jinzhinuo C132 Indica Intermediate 2.09
Muguanuo-2 C133 Temperate Japonica 2.21
Wuzidui C134 Temperate Japonica 2.06
Xibaizhan C135 Indica I 1.94
Zegu C136 Indica I 2.07
Cungunuo C137 Temperate Japonica 2.24
Lengshuigu C138 Temperate Japonica 2.19
WH139 C139 Indica I 1.96
Wuzuhonggu C140 Indica I 1.98
Nangaogu-1 C141 Indica I 1.92
Mowanggunei-1 C142 Indica III 2.02
Qitougu C143 Indica I 1.96
Huangpinuo C144 Temperate Japonica 2.35
Zhenshan97B C145 Indica I 2.0
Nipponbare C146 Temperate Japonica 2.23
Minghui63 C147 Indica II 1.95
9311 C148 Indica II 2.06
Zhonghua11 C149 Temperate Japonica 2.32
Balilla C150 Temperate Japonica 2.24
Nanjing11 C151 Indica I 2.0
02428 C152 Temperate Japonica 1.92
IRAT109 C153 Tropical Japonica 2.28
Heigeng2hao C154 Temperate Japonica 2.16
Erjiunan1hao C155 Indica I 2.1
ChaoyangyihaoB C156 Indica I 1.98
L301B C157 Indica I 1.85
Guangluai15 C158 Indica I 1.97
ZhuzhenB C159 Indica I 2.15
Baoxie-7B C160 Indica Intermediate 1.95
Gzhenshan97B C161 Indica I 2.14
Nanxiongzaoyou C162 Indica Intermediate 1.98
Zaoshuxianghei C163 Indica II 2.0
IR661-1 C164 Indica II 2.03
Nanjing11-2 C165 Indica I 2.11
Gui630 C166 Indica Intermediate 2.09
76--1 C167 Indica Intermediate 2.19
Xugunuo C168 Indica Intermediate 2.19
Taizhongzailai1 C169 Indica Intermediate 1.97
Xiangwanxian1hao C170 Indica I 1.97
Xingguo C171 Temperate Japonica 2.09
Zhonghua8hao C172 Temperate Japonica 2.31
Aimakang C173 Indica I 2.05
JWR221 C174 Indica II 2.11
Zhengxian232 C175 Indica Intermediate 1.87
Chenwan3hao C176 Indica Intermediate 2.1
Maguzi C177 Temperate Japonica 2.03
Aimi C178 Indica I 1.98
Haobayong1 C179 Temperate Japonica 2.18
Wanlixian C180 Indica I 2.0
Feidongtangdao C181 Temperate Japonica 2.13
Hengxianliangchun C182 Indica I 2.03
Leihuozhan C183 Indica I 2.05
Baikezaohe C184 Indica I 2.1
Haomake(K) C185 Japonica Intermediate 2.07
Sanbangqishiluo C186 Japonica Intermediate 2.22
Niankenuo C187 Temperate Japonica 2.14
Yangkenuo C188 Temperate Japonica 2.05
Putaohuang C189 Temperate Japonica 2.11
Xiangdao C190 Indica I 1.96
Younian C191 Indica I 2.08
Wukezhan C192 Indica Intermediate 1.97
Zhongnong4hao C193 Indica I 1.99
Minbeiwanxian C194 Indica Intermediate 1.93
Hongmisandan C195 Temperate Japonica 1.91
Yuyannuo-2 C196 Temperate Japonica 2.1
Maweinian C197 Indica I 1.99
Zinuo C198 Indica Intermediate 2.07
Beizinuo C199 Indica I 1.94
Biwusheng C200 Indica I 1.94
Yizhixiang C201 Indica Intermediate 1.92
Xiaobaimi C202 Indica I 2.03
Zaoxian240 C203 Indica I 2.1
Mayang_Khang W001 Indica I 2.09
E_B_Gopher W002 Tropical Japonica 1.81
C_5560 W003 Tropical Japonica 2.06
Quinimpol W004 Tropical Japonica 1.98
TAICHU_MOCHI_59 W005 Tropical Japonica 1.73
WC_2811 W006 Tropical Japonica 1.95
Criollo_Chivacoa_2 W007 Tropical Japonica 1.8
Secano_do_Brazil W008 Tropical Japonica 1.91
BERLIN W009 Indica III 2.05
Sel._No._388 W010 Japonica Intermediate 1.93
SHIMIZU_MOCHI W011 Temperate Japonica 2.2
KRASNODARSKIJ_424 W012 Temperate Japonica 2.38
Pergonil_15 W013 Temperate Japonica 2.45
Red_Khosha_Cerma W014 VI/Aromatic 1.84
Safut_Khosha W015 Aus 2.16
NORIN_11 W016 Temperate Japonica 2.27
R_75 W017 Tropical Japonica 1.89
UZ_ROSZ_M38 W018 Temperate Japonica 2.1
H57-3-1 W019 Japonica Intermediate 1.92
IARI_6626 W020 Aus 1.83
Khao_Luang W021 Japonica Intermediate 2.31
C_8429 W022 Tropical Japonica 2.11
Warrangal_Culture_1252 W023 Indica III 1.83
Padi_Pohon_Batu W024 Tropical Japonica 1.83
NC_1/536 W025 Aus 1.73
Won_Son_Zo_No._11 W026 Indica I 1.99
Chacareiro_Uruguay W027 Temperate Japonica 1.8
Doble_Carolina W028 Aus 1.8
Ai_Chueh_Ta_Pai_Ku W029 Indica Intermediate 2.03
Thang_10 W030 Indica Intermediate 1.84
Sipirasikkam W031 Indica I 1.87
TJ W032 Indica I 1.84
PD_46 W033 Indica I 1.99
PATNAI_6 W034 Aus 1.88
K8C-263-3 W035 Indica Intermediate 1.99
Chun_118-33 W036 Indica I 1.99
Manga_Kely_694 W037 Indica Intermediate 2.07
BLUE_STICK W038 Temperate Japonica 2.06
Nam_Dawk_Mai W039 Indica I 2.11
INIAP_7 W040 Indica II 1.98
Onu_B W041 Tropical Japonica 1.9
Red W042 Indica Intermediate 2.07
Dichroa_Alef_Uslkij W043 Indica Intermediate 1.89
BKN_6987-68-14 W044 Indica II 2.09
KUBANETS_508 W045 Temperate Japonica 2.23
IR_9660-48-1-1-2 W046 Indica II 1.9
Jumli_dhan W047 Japonica Intermediate 2.19
N-2703 W048 Aus 1.99
PHUDUGEY W049 Aus 1.67
Ak_Tokhum W050 VI/Aromatic 2.16
RP2151-173-1-8 W051 Indica II 2.02
HB-6-2 W052 Temperate Japonica 2.12
GPNO_1106 W053 Tropical Japonica 1.87
Toga W054 Indica Intermediate 1.92
Ragasu W055 Intermediate 2.01
Tamanishiki W056 Temperate Japonica 2.15
Grassy W057 Tropical Japonica 1.9
Kao_Chio_Lin_Chou W058 Indica I 2.04
Niwahutaw_Mochi W059 Temperate Japonica 2.1
Somewake W060 Temperate Japonica 2.23
Ardito W061 Japonica Intermediate 2.45
NANTON_NO._131 W062 Tropical Japonica 2.05
Vary_Tarva_Osla W063 Japonica Intermediate 2.12
CSORNUJ W064 Temperate Japonica 2.01
R_67 W065 Tropical Japonica 2.03
IR_238 W066 Indica Intermediate 1.89
Mitak W067 Tropical Japonica 2.03
Gazan W068 Temperate Japonica 1.91
99216 W069 Aus 1.62
Shui_Ya_Jien W070 Indica Intermediate 1.83
AKP_4 W071 Indica Intermediate 1.96
SORNAVARI W072 Aus 1.91
IR_2061-214-2-3 W073 Indica II 1.9
TAINUNG_45 W074 Indica Intermediate 2.23
Sapundali_Local W075 Indica Intermediate 2.0
Tauli W076 Aus 2.06
79 W077 VI/Aromatic 1.96
B805D-MR-16-8-3 W078 Indica Intermediate 2.07
A_152 W079 Intermediate 2.02
UZ_ROS_59 W080 Indica I 1.96
Gasym_Hany W081 VI/Aromatic 2.01
Celiaj W082 Temperate Japonica 2.18
CNTLR80076-44-1-1-1 W083 Indica Intermediate 2.02
IR_58614-B-B-8-2 W084 Indica Intermediate 1.98
KECHENGNUO_NO._4 W085 Indica Intermediate 1.95
4484 W086 Indica II 1.89
YOU-I_B W087 Indica I 1.98
CHUNJIANGZAO_NO._1 W088 Temperate Japonica 2.23
Egyptian_Wild_Type W089 Indica III 1.83
C.B._II W090 Aus 2.05
Gallawa W091 Aus 1.91
Karayal W092 Aus 1.95
Srav_Prapay W093 Indica III 1.72
Nang_Bang_Bentre W094 Aus 2.1
DJ_24 W095 Aus 2.12
DJ_102 W096 Aus 2.09
Santhi_990 W097 Intermediate 2.07
UZ_ROS_7-13 W098 Aus 2.06
SL_22-620 W099 Aus 1.85
Spin_Mere W100 Aus 1.94
AMANE W101 Indica Intermediate 2.16
Padi_Tarab_Arab W102 Tropical Japonica 1.91
P_35 W103 Aus 1.98
CAROLINO_164 W104 Aus 1.92
HKG_98 W105 Aus 2.04
Daudzai_Field_Mix W106 Aus 1.9
JP_5 W107 Indica Intermediate 2.19
Hi_Muke W108 Aus 1.94
WIR_911 W109 Temperate Japonica 2.04
Lua_Chua_Chan W110 Tropical Japonica 2.0
Sereno W111 Indica III 1.98
ARC_10633 W112 Indica III 2.03
Simpor W113 Tropical Japonica 1.8
Heo_Trang W114 Indica III 1.9
THAVALU W115 Aus 2.03
WC_10253 W116 Tropical Japonica 2.1
KRASNODARSKIJ_3352 W117 Temperate Japonica 2.38
EMBRAPA_1200 W118 Tropical Japonica 1.96
WAB462-10-3-1 W119 Tropical Japonica 1.91
Bombilla W120 Temperate Japonica 2.24
TCHAMPA W121 Aus 2.04
BHIM_DHAN W122 Japonica Intermediate 1.78
WC_3532 W123 Tropical Japonica 2.0
Kin_Shan_Zim W124 Indica I 1.82
Yong_Chal_Byo W125 Intermediate 2.02
Pan_Ju W126 Indica I 1.9
Buphopa W127 Japonica Intermediate 2.1
TAINO_38 W128 Intermediate 1.94
2 W129 VI/Aromatic 1.87
LUSITANO W130 Temperate Japonica 2.17
IARI_6621 W131 Aus 1.61
Hsin_Hsing_Pai_Ku W132 Indica I 1.91
TD_70 W133 Indica Intermediate 1.97
Dara W134 Aus 1.88
Shimla_Early W135 Indica Intermediate 1.98
LA_PLATA_GENA_F.A. W136 VI/Aromatic 1.96
CM1;_HAIPONG W137 Indica Intermediate 2.01
4595 W138 Indica I 1.85
A_5 W139 Temperate Japonica 2.17
Ittikulama W140 Aus 1.99
DNJ_179 W141 Aus 2.11
DNJ_121 W142 Aus 1.9
Jyanak W143 Japonica Intermediate 1.75
Ao_Chiu_2_Hao W144 Indica I 2.0
GUYANE_1 W145 Indica Intermediate 2.04
10340 W146 Indica I 2.07
BR11 W147 Indica Intermediate 1.94
BR24 W148 Indica Intermediate 2.03
93072 W149 Indica Intermediate 2.08
108S W150 Indica II 1.97
C418 W151 Indica II 2.0
CDR22 W152 Indica II 1.9
Chenghui448 W153 Indica II 1.97
Fengaizhan W154 Indica II 1.78
Gang46B W155 Indica Intermediate 1.93
Gumei2hao W156 Indica I 2.11
Huajingxian74 W157 Indica Intermediate 1.94
M3122 W158 Intermediate 2.04
R644 W159 Indica II 1.92
Shennong265 W160 Temperate Japonica 2.23
Y134 W161 Indica II 1.92
Yuanjing7 W162 Temperate Japonica 2.23
Yuexiangzhan W163 Indica Intermediate 1.78
Zaoxian14 W164 Indica Intermediate 1.95
Zhong413 W165 Indica Intermediate 2.08
Zhongyouzao81 W166 Indica Intermediate 2.02
Zihui100 W167 Indica Intermediate 1.96
Bg90-2 W168 Indica II 2.06
IR72 W169 Indica II 1.89
PR106 W170 Indica II 1.81
TKM9 W171 Indica Intermediate 1.96
Amo13_(Sana) W172 Indica II 1.94
Khazar W173 Tropical Japonica 1.92
Gayabyeo W174 Indica II 1.88
Iksan438 W175 Intermediate 2.03
Milyang23 W176 Indica II 1.95
MR185 W177 Indica II 1.95
Manawthukha W178 Indica III 1.75
Shwe_Thwe_Yin_Hyv W179 Indica II 1.77
Bg300 W180 Indica Intermediate 2.03
Bg94-1 W181 Indica Intermediate 2.01
CR203 W182 Indica II 1.88
OM997 W183 Indica II 1.88
PSB_RC_28 W184 Indica II 1.88
PSB_RC_66 W185 Indica II 1.98
TEQING W186 Indica Intermediate -9.0
IR68552-55-3-2 W187 Indica Intermediate -9.0
IR66897B W188 Indica II 1.86
IR58025B W189 Indica II 1.91
Pusa_(Basmatil) W191 Intermediate 1.78
ASD16 W192 Intermediate 2.0
Dianjing W193 Temperate Japonica 2.04
F6 W194 Indica II 1.85
452 W195 Indica II 1.81
Ai-Zi-DAO W197 Indica II 1.74
Babaomi W198 Indica Intermediate 2.19
Diantun502 W199 Indica Intermediate 2.06
Heiheaihui W200 Indica Intermediate 1.89
Jiangxisimiao W201 Indica Intermediate 1.9
Laohudao W202 Indica Intermediate 1.94
Linjintangdao W203 Indica Intermediate 1.92
Mengguandamagu W204 Indica I 1.89
Pengshantieganzhan W205 Indica I 1.9
Wumanggaonuo W206 Indica Intermediate 2.08
Yunguang8hao W207 Temperate Japonica 2.26
Zhongchao123 W208 Temperate Japonica 2.36
Gizal159 W209 Temperate Japonica 2.06
Khao_Daeng W210 Indica I 2.02
Basmati370 W211 Indica II 1.77
Bhavani W212 Indica Intermediate 1.98
IR50 W213 Indica Intermediate 1.8
Jhona349 W214 Aus 1.93
Karnal_Local W215 Aus 1.93
Type3 W216 Indica II 1.95
IRAT352 W217 Indica Intermediate 1.74
TB154E-TB-2 W218 Indica Intermediate 1.76
Domsiah W219 VI/Aromatic 1.87
Tarommolai1 W220 VI/Aromatic 1.87
MR77_(seberang) W221 Indica Intermediate 1.71
ir6 W222 Indica II 1.98
At354 W223 Indica II 1.99
BG304 W224 Indica II 1.83
Lemont W225 Tropical Japonica 1.92
M401 W226 Temperate Japonica 1.97
OM1706 W227 Indica Intermediate 1.91
OM1723 W228 Indica II 1.99
X21 W229 Indica II 1.95
X22 W230 Indica II 1.94
X23 W231 Indica II 2.01
C70 W233 Indica Intermediate 2.04
Q5 W234 Indica Intermediate 2.05
Suiyangnian W235 Indica I 1.94
Pokhreli W236 Indica II 1.95
Govnd W237 Indica II 1.87
UPR191-66 W238 Indica II 1.83
ASD18 W239 Indica Intermediate 1.81
TGMS29 W240 Indica Intermediate 2.02
Phalguna W241 Indica II 1.94
Ajaya W242 Indica Intermediate 2.02
Dodda W243 Indica II 1.92
Palung_2 W244 Indica II 1.91
TKM6 W245 Indica Intermediate 1.8
RUSTYLATE/Zhong_413 W246 Indica Intermediate 2.09
Yenfangghu W247 Indica I 2.0
Heimichut W248 Indica I 1.92
Teksichut W249 Temperate Japonica 2.31
Eiko W250 Temperate Japonica 2.24
RUBIO W251 Tropical Japonica 1.94
SADRI_RICE_1 W252 VI/Aromatic 1.85
Sereendan_Kuning W253 Tropical Japonica 1.96
SAI-BUI-BAO W254 Tropical Japonica 1.96
ZIRI W255 VI/Aromatic 1.84
Dacca6 W256 VI/Aromatic 1.99
Latisai1 W257 Tropical Japonica 2.04
Amareles W258 VI/Aromatic 1.96
Up15 W259 Indica II 1.96
Uz-Rosz_275 W260 Tropical Japonica 2.09
Ginga W261 Intermediate 2.25
Bintapan W262 Indica I 2.07
SADAJIRA-19-303 W263 Indica Intermediate 1.81
CHOROFA W264 Indica Intermediate 2.04
La110 W265 Indica Intermediate 1.78
Yunjiang35 W266 Indica III 1.58
Yunhui72 W267 Indica Intermediate 1.98
Wudadaozhong W268 Indica Intermediate 2.0
IR65600-27-1-2-2 W269 Indica Intermediate 1.91
Yetuozai W270 Indica Intermediate 1.92
P59279 W271 Indica Intermediate 2.04
Tsao_wan_ching W272 Indica Intermediate 2.09
Anambae_ndanggalasi W273 Tropical Japonica 1.78
Er_chiu_ching W274 Indica I 2.12
Heen_goda_wee W275 Tropical Japonica 1.98
Pathma_wee W276 Indica III 2.06
Lakkhi_kajal W277 Aus 2.04
Moisdol W278 Aus 2.0
Jabor_sail W279 Aus 1.98
Sada_solay W280 Aus 2.15
Sholay W281 Temperate Japonica 2.21
Ma_ba_you_zhan W282 Indica Intermediate -9.0
Daegujo W283 Temperate Japonica 2.29
Paikasa W284 Tropical Japonica 1.76
Uwi W285 Tropical Japonica 1.94
Garia W286 Aus 2.08
AUS_449 W287 Aus 2.02
Dourado_Precoce W288 Tropical Japonica 2.11
IR_661-1-140-3-117 W289 Indica II 1.96
Aichi_Asahi W290 Temperate Japonica 2.16
IR_2071-625-1-252 W291 Indica II -9.0
Khoia_boro W292 Aus 2.0
IR_8 W293 Indica II 1.99
LABELLE W294 Intermediate 1.8
LEBONNET W295 Indica II 1.96
AUS_371 W296 Aus 1.9
AUS_373 W297 Aus 1.81
IR_36 W298 Indica II 1.81
JAYA W299 Indica Intermediate 1.91
NEW_BONNET W300 Tropical Japonica 1.83
IR_64 W301 Indica II 1.89
KUNTLAN W302 Tropical Japonica 2.11
British_Honduras_Creole W303 Tropical Japonica 1.91
CPSLO_17 W304 Intermediate 1.82
AKITAKOMACHI W305 Temperate Japonica 2.21
BASMATI_385 W306 VI/Aromatic 1.8
AGNO_(PSBRC28) W307 Indica II 1.91
PSBRC82 W308 Indica II 1.99
NSICRC122 W309 Indica II 1.87
BRRI_DHAN_29 W310 Indica Intermediate 1.83
PR_116 W311 Indica II 1.94
CIGEULIS W312 Indica II 1.97
OM_2517 W313 Indica II 1.88
BRRI_DHAN_28 W314 Indica II 1.83
CIBOGO W315 Indica II 1.99
NEDA W316 Indica II 1.96
CIHERANG W317 Indica II 1.99
Qiuqianbai W318 Indica I 1.98
Guangkexiangnuo W319 Temperate Japonica 2.2
Wenxiangnuo W320 Indica Intermediate 2.19
Laozaogu W321 Indica III 2.07
Lengshuinuo W322 Indica Intermediate 1.94
Feienuo2 W323 Japonica Intermediate 2.0
Zimangfeie W324 Japonica Intermediate 2.08
Guantuibaihe W325 Temperate Japonica 2.24
Haolvguangnian W326 Japonica Intermediate 2.09
JinghuB W327 Temperate Japonica 2.32
Sibeitichao6 W328 Intermediate 2.4
GPNO_5055 W329 Tropical Japonica 2.05
ASWINA_330 W330 Aus 2.03

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
vg0523498004 sf0523435425 5 23498004 8.88E-46 2.51E-10
vg0516380042 sf0516322524 5 16380042 5.83E-44 NA
vg0511846841 sf0511846771 5 11846841 3.99E-43 NA
vg0507120963 sf0507120905 5 7120963 4.49E-43 NA
vg0507158546 sf0507158488 5 7158546 1.25E-42 1.07E-08
vg0311723715 sf0311722433 3 11723715 2.16E-42 NA
vg0504656439 sf0504656416 5 4656439 6.96E-38 1.90E-08
vg0228498639 sf0228492770 2 28498639 1.07E-37 4.74E-07
vg0138640378 sf0138639335 1 38640378 2.85E-36 9.82E-07
vg0505372955 sf0505372933 5 5372955 NA 5.34E-13
vg0827604168 sf0827601454 8 27604168 NA 6.94E-09
vg0901891440 sf0901890440 9 1891440 NA 1.50E-08
vg0505322118 sf0505322096 5 5322118 NA 2.75E-08
vg1202975555 sf1202974557 12 2975555 NA 6.48E-08
vg0507027003 sf0507026945 5 7027003 NA 7.43E-08
vg0904554252 sf0904553252 9 4554252 NA 1.50E-07
vg0504049977 sf0504049954 5 4049977 NA 2.73E-07
vg0102576228 sf0102575228 1 2576228 NA 4.95E-07
vg0138932968 sf0138931925 1 38932968 NA 5.15E-07
vg1224718310 sf1224684764 12 24718310 NA 5.59E-07
vg0902136055 sf0902135055 9 2136055 NA 6.73E-07
vg1224695766 sf1224662220 12 24695766 NA 2.80E-06