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 Spikelet length Distribution in All Population:

Phenotype Information Table:

Note: -9 means missing value.

Cultivar Name Cultivar ID Subpopulation Spikelet length
Sadu-cho C001 Indica I 19.28
Dom_Sufid C002 VI/Aromatic 27.74
Gerdeh C003 Japonica Intermediate 26.37
Li-Jiang-Xin-Tuan-Hei-Gu_ C004 Temperate Japonica 21.75
AZUCENA C005 Tropical Japonica 30.48
Shan-Huang_Zhan-2-1_ C006 Indica Intermediate 22.6
Shan-Huang_Zhan-2-2_ C007 Indica Intermediate 22.09
Swarna C008 Indica Intermediate 20.21
MOROBEREKAN C009 Indica Intermediate 20.13
CYPRESS C010 Tropical Japonica 21.55
MILYANG_23 C011 Indica II 26.49
Tainong67 C012 Temperate Japonica 22.09
N_22 C013 Aus 20.15
M202 C014 Japonica Intermediate 17.51
Dular C015 Aus 25.33
Laoguangtou83 C016 Temperate Japonica 14.87
AnnongwangengB-1 C017 Temperate Japonica 18.83
AnnongwangengB-2 C018 Temperate Japonica 15.07
Aijiaonante C019 Indica I 20.17
Guangluai-4-1 C020 Indica I 19.41
xiangaizao10 C021 Indica I 18.96
JinnanteB C022 Indica I 18.35
Funingzipi C023 Temperate Japonica 20.35
zhenshan97B-1 C024 Indica I 18.77
Qingsiai16B C025 Indica Intermediate 17.59
Weiguo C026 Temperate Japonica 19.4
Dianrui409B C027 Indica Intermediate 24.02
Liaogeng287 C028 Temperate Japonica 15.24
Huhui628 C029 Japonica Intermediate 21.13
88B-1 C030 Indica Intermediate 24.38
88B-2 C031 Indica Intermediate 22.85
Longhuamaohu C032 Temperate Japonica 18.57
Lucaihao C033 Indica I 21.75
Zhonglouyihao1 C034 Temperate Japonica 23.69
Yelicanghua C035 Temperate Japonica 18.86
Shufeng101 C036 Indica Intermediate 19.7
Chengduai3hao C037 Indica I 21.37
Sankecui C038 Indica Intermediate 25.16
Gongju73 C039 Indica I 22.02
Jiabala C040 Indica I 23.73
Taishannuo C041 Indica I 22.56
Guichao2hao C042 Indica Intermediate 20.07
Huke3hao C043 Indica I 21.08
Teqingxuanhui C044 Indica Intermediate 21.57
Huangsiguizhan C045 Indica Intermediate 16.56
Xiangwanxian3hao C046 Indica Intermediate 26.32
Hanmadao-2 C047 Indica I 25.45
Zaoshunonghu6 C048 Temperate Japonica 21.75
Jinyou1hao C049 Indica Intermediate 23.21
Chengnongshuijing C050 Indica II 26.86
PeiC122 C051 Intermediate 26.98
Guihuahuang C052 Temperate Japonica 17.57
Momi C053 Indica Intermediate 26.86
Xiushui115 C054 Temperate Japonica 19.15
Sanbaili C055 Indica I 21.23
Jindao1hao C056 Temperate Japonica 20.85
Dandongludao C057 Japonica Intermediate 23.12
Liusha1hao C058 Indica I 20.52
Bawangbian1 C059 Indica I 22.37
Dongtingwanxian C060 Indica I 23.99
Yangdao2hao C061 Indica II 30.5
WH62 C062 Indica I 22.02
Geng87-304 C063 Temperate Japonica 23.25
Sugeng2hao C064 Temperate Japonica 16.42
Hongwan1hao C065 Indica Intermediate 22.27
Liushizao C066 Indica I 22.7
Muxiqiu C067 Temperate Japonica 21.95
Taizhongxianxuan2 C068 Indica II 21.53
Dangyu5hao C069 Indica II 29.29
Youmangzaogeng C070 Temperate Japonica 16.77
Laohuzhong C071 Temperate Japonica 22.68
Nantehao C072 Indica I 22.63
Esiniu C073 Indica I 21.76
cunsanli C074 Temperate Japonica 22.39
Huangkezaonian C075 Temperate Japonica 23.21
Benbanggu-1 C076 Indica I 23.04
Benbanggu-2 C077 Indica I 21.75
Qitoubaigu C078 Indica Intermediate 22.57
Muguanuo-1 C079 Temperate Japonica 25.4
Hanmadao-1 C080 Indica I 22.48
Heidu4 C081 Indica I 20.23
Gaoyangdiandao C082 Temperate Japonica 24.25
chikenuo C083 Temperate Japonica 26.01
Haobuka C084 Japonica Intermediate 17.52
Shanjiugu C085 Japonica Intermediate 25.71
Fanhaopi C086 Aus 25.03
Lixingeng C087 Temperate Japonica 24.54
Nangaogu-2 C088 Indica I 24.19
Tieganwu C089 Temperate Japonica 20.09
Sanlicun C090 Indica Intermediate 27.36
Meihuanuo-1 C091 Indica I 25.97
Meihuanuo-2 C092 Indica I 24.87
Xiangnuo-2 C093 Temperate Japonica 26.9
Menjiagao1 C094 Indica Intermediate 28.35
Xiaohonggu C095 Indica I 25.03
Jinxibai-1 C096 Indica Intermediate 25.12
Jinbaoyin C097 Indica Intermediate 24.61
Hongainuo C098 Indica Intermediate 21.63
WH099 C099 Indica Intermediate 21.4
WH100 C100 Indica Intermediate 26.35
Babaili C101 Temperate Japonica 28.95
Qiyuexian C102 Indica Intermediate 20.95
Yuyannuo-1 C103 Temperate Japonica 28.38
Mamagu-1 C104 Indica I 22.92
WH105 C105 Indica Intermediate 28.76
Hongkezhenuo C106 Temperate Japonica 27.43
Mowanggunei-2 C107 Indica III 26.74
Mamagu-2 C108 Indica I 21.31
WH109 C109 Indica I 24.36
Xianggu C110 Indica I 26.68
Ximaxian C111 Temperate Japonica 26.35
Jinnante43B C112 Indica I 18.55
Xiangzaoxian7hao C113 Indica Intermediate 18.71
80B C114 Indica Intermediate 19.77
WH115 C115 Indica II 19.24
LimingB C116 Temperate Japonica 16.61
Jiangnongzao1hao C117 Indica Intermediate 22.23
Gu154 C118 Indica II 24.57
Ninghui21 C119 Temperate Japonica 20.38
Shuiyuan300li C120 Temperate Japonica 18.65
XiangaiB C121 Indica Intermediate 20.47
Aituogu151 C122 Indica I 21.06
Taidongludao C123 Tropical Japonica 21.76
menjiading2 C124 Indica Intermediate 24.01
Jiefangxian C125 Indica I 22.11
Baikehualuo C127 Indica I 27.52
Liuyezhan C128 Indica I 23.25
Aihechi C129 Indica Intermediate 25.55
Xiangnuo-1 C130 Temperate Japonica 24.43
Xuanenchangtan C131 Indica I 22.8
Jinzhinuo C132 Indica Intermediate 22.01
Muguanuo-2 C133 Temperate Japonica 25.13
Wuzidui C134 Temperate Japonica 22.99
Xibaizhan C135 Indica I 25.49
Zegu C136 Indica I 21.54
Cungunuo C137 Temperate Japonica 24.76
Lengshuigu C138 Temperate Japonica 33.34
WH139 C139 Indica I 26.26
Wuzuhonggu C140 Indica I 24.12
Nangaogu-1 C141 Indica I 25.03
Mowanggunei-1 C142 Indica III 24.31
Qitougu C143 Indica I 25.33
Huangpinuo C144 Temperate Japonica 28.44
Zhenshan97B C145 Indica I 21.15
Nipponbare C146 Temperate Japonica 17.49
Minghui63 C147 Indica II 27.64
9311 C148 Indica II 25.77
Zhonghua11 C149 Temperate Japonica 21.45
Balilla C150 Temperate Japonica 15.58
Nanjing11 C151 Indica I 22.98
02428 C152 Temperate Japonica 23.67
IRAT109 C153 Tropical Japonica 23.21
Heigeng2hao C154 Temperate Japonica 14.16
Erjiunan1hao C155 Indica I 16.74
ChaoyangyihaoB C156 Indica I 17.49
L301B C157 Indica I 20.23
Guangluai15 C158 Indica I 21.89
ZhuzhenB C159 Indica I 22.29
Baoxie-7B C160 Indica Intermediate 21.77
Gzhenshan97B C161 Indica I 21.13
Nanxiongzaoyou C162 Indica Intermediate 13.87
Zaoshuxianghei C163 Indica II 23.55
IR661-1 C164 Indica II 25.25
Nanjing11-2 C165 Indica I 20.8
Gui630 C166 Indica Intermediate 22.65
76--1 C167 Indica Intermediate 20.01
Xugunuo C168 Indica Intermediate 19.19
Taizhongzailai1 C169 Indica Intermediate 26.73
Xiangwanxian1hao C170 Indica I 21.69
Xingguo C171 Temperate Japonica 24.03
Zhonghua8hao C172 Temperate Japonica 21.3
Aimakang C173 Indica I 21.84
JWR221 C174 Indica II 23.52
Zhengxian232 C175 Indica Intermediate 28.23
Chenwan3hao C176 Indica Intermediate 19.72
Maguzi C177 Temperate Japonica 20.08
Aimi C178 Indica I 25.81
Haobayong1 C179 Temperate Japonica 27.39
Wanlixian C180 Indica I 23.87
Feidongtangdao C181 Temperate Japonica 22.43
Hengxianliangchun C182 Indica I 22.64
Leihuozhan C183 Indica I 24.83
Baikezaohe C184 Indica I 23.62
Haomake(K) C185 Japonica Intermediate 25.02
Sanbangqishiluo C186 Japonica Intermediate 30.33
Niankenuo C187 Temperate Japonica 25.87
Yangkenuo C188 Temperate Japonica 23.11
Putaohuang C189 Temperate Japonica 19.15
Xiangdao C190 Indica I 26.14
Younian C191 Indica I 26.85
Wukezhan C192 Indica Intermediate 24.46
Zhongnong4hao C193 Indica I 23.87
Minbeiwanxian C194 Indica Intermediate 24.15
Hongmisandan C195 Temperate Japonica 23.07
Yuyannuo-2 C196 Temperate Japonica 25.76
Maweinian C197 Indica I 19.83
Zinuo C198 Indica Intermediate 29.34
Beizinuo C199 Indica I 25.64
Biwusheng C200 Indica I 22.4
Yizhixiang C201 Indica Intermediate 26.19
Xiaobaimi C202 Indica I 27.56
Zaoxian240 C203 Indica I 19.84
Mayang_Khang W001 Indica I 18.37
E_B_Gopher W002 Tropical Japonica 25.26
C_5560 W003 Tropical Japonica 24.31
Quinimpol W004 Tropical Japonica 23.04
TAICHU_MOCHI_59 W005 Tropical Japonica 22.65
WC_2811 W006 Tropical Japonica 24.6
Criollo_Chivacoa_2 W007 Tropical Japonica 26.47
Secano_do_Brazil W008 Tropical Japonica 25.83
BERLIN W009 Indica III 27.21
Sel._No._388 W010 Japonica Intermediate 23.92
SHIMIZU_MOCHI W011 Temperate Japonica 25.74
KRASNODARSKIJ_424 W012 Temperate Japonica 21.89
Pergonil_15 W013 Temperate Japonica 20.24
Red_Khosha_Cerma W014 VI/Aromatic 19.6
Safut_Khosha W015 Aus 25.08
NORIN_11 W016 Temperate Japonica 13.68
R_75 W017 Tropical Japonica 24.36
UZ_ROSZ_M38 W018 Temperate Japonica 20.02
H57-3-1 W019 Japonica Intermediate 20.68
IARI_6626 W020 Aus 21.78
Khao_Luang W021 Japonica Intermediate 24.5
C_8429 W022 Tropical Japonica 28.84
Warrangal_Culture_1252 W023 Indica III 25.6
Padi_Pohon_Batu W024 Tropical Japonica 22.92
NC_1/536 W025 Aus 23.86
Won_Son_Zo_No._11 W026 Indica I 24.2
Chacareiro_Uruguay W027 Temperate Japonica 23.31
Doble_Carolina W028 Aus 26.04
Ai_Chueh_Ta_Pai_Ku W029 Indica Intermediate 20.73
Thang_10 W030 Indica Intermediate 24.28
Sipirasikkam W031 Indica I 23.47
TJ W032 Indica I 22.48
PD_46 W033 Indica I 23.62
PATNAI_6 W034 Aus 24.76
K8C-263-3 W035 Indica Intermediate 28.4
Chun_118-33 W036 Indica I 27.49
Manga_Kely_694 W037 Indica Intermediate 27.32
BLUE_STICK W038 Temperate Japonica 21.46
Nam_Dawk_Mai W039 Indica I 25.37
INIAP_7 W040 Indica II 25.14
Onu_B W041 Tropical Japonica 27.49
Red W042 Indica Intermediate 26.99
Dichroa_Alef_Uslkij W043 Indica Intermediate 24.29
BKN_6987-68-14 W044 Indica II 21.31
KUBANETS_508 W045 Temperate Japonica 19.5
IR_9660-48-1-1-2 W046 Indica II 23.09
Jumli_dhan W047 Japonica Intermediate 23.86
N-2703 W048 Aus 24.61
PHUDUGEY W049 Aus 27.34
Ak_Tokhum W050 VI/Aromatic 26.57
RP2151-173-1-8 W051 Indica II 25.39
HB-6-2 W052 Temperate Japonica 19.74
GPNO_1106 W053 Tropical Japonica 25.81
Toga W054 Indica Intermediate 23.03
Ragasu W055 Intermediate 26.02
Tamanishiki W056 Temperate Japonica 22.79
Grassy W057 Tropical Japonica 28.27
Kao_Chio_Lin_Chou W058 Indica I 22.29
Niwahutaw_Mochi W059 Temperate Japonica 21.57
Somewake W060 Temperate Japonica 24.91
Ardito W061 Japonica Intermediate 20.73
NANTON_NO._131 W062 Tropical Japonica 30.45
Vary_Tarva_Osla W063 Japonica Intermediate 21.28
CSORNUJ W064 Temperate Japonica 16.95
R_67 W065 Tropical Japonica 24.33
IR_238 W066 Indica Intermediate 22.21
Mitak W067 Tropical Japonica 29.03
Gazan W068 Temperate Japonica 22.29
99216 W069 Aus 26.98
Shui_Ya_Jien W070 Indica Intermediate 30.38
AKP_4 W071 Indica Intermediate 23.13
SORNAVARI W072 Aus 24.69
IR_2061-214-2-3 W073 Indica II 24.6
TAINUNG_45 W074 Indica Intermediate 24.87
Sapundali_Local W075 Indica Intermediate 23.51
Tauli W076 Aus 23.13
79 W077 VI/Aromatic 25.62
B805D-MR-16-8-3 W078 Indica Intermediate 20.93
A_152 W079 Intermediate 25.72
UZ_ROS_59 W080 Indica I 25.99
Gasym_Hany W081 VI/Aromatic 28.85
Celiaj W082 Temperate Japonica 24.32
CNTLR80076-44-1-1-1 W083 Indica Intermediate 24.01
IR_58614-B-B-8-2 W084 Indica Intermediate 25.22
KECHENGNUO_NO._4 W085 Indica Intermediate 23.03
4484 W086 Indica II 23.6
YOU-I_B W087 Indica I 19.22
CHUNJIANGZAO_NO._1 W088 Temperate Japonica 18.43
Egyptian_Wild_Type W089 Indica III 24.03
C.B._II W090 Aus 19.06
Gallawa W091 Aus 23.06
Karayal W092 Aus 24.49
Srav_Prapay W093 Indica III 24.09
Nang_Bang_Bentre W094 Aus 23.47
DJ_24 W095 Aus 26.98
DJ_102 W096 Aus 24.03
Santhi_990 W097 Intermediate 15.95
UZ_ROS_7-13 W098 Aus 20.76
SL_22-620 W099 Aus 26.11
Spin_Mere W100 Aus 24.65
AMANE W101 Indica Intermediate 27.25
Padi_Tarab_Arab W102 Tropical Japonica 25.89
P_35 W103 Aus 20.11
CAROLINO_164 W104 Aus 22.42
HKG_98 W105 Aus 26.06
Daudzai_Field_Mix W106 Aus 22.33
JP_5 W107 Indica Intermediate 24.49
Hi_Muke W108 Aus 19.97
WIR_911 W109 Temperate Japonica 18.03
Lua_Chua_Chan W110 Tropical Japonica 24.37
Sereno W111 Indica III 26.47
ARC_10633 W112 Indica III 26.14
Simpor W113 Tropical Japonica 25.27
Heo_Trang W114 Indica III -9.0
THAVALU W115 Aus 24.22
WC_10253 W116 Tropical Japonica 32.1
KRASNODARSKIJ_3352 W117 Temperate Japonica 20.9
EMBRAPA_1200 W118 Tropical Japonica 22.82
WAB462-10-3-1 W119 Tropical Japonica 20.01
Bombilla W120 Temperate Japonica 19.86
TCHAMPA W121 Aus 30.22
BHIM_DHAN W122 Japonica Intermediate 25.56
WC_3532 W123 Tropical Japonica 26.1
Kin_Shan_Zim W124 Indica I 21.8
Yong_Chal_Byo W125 Intermediate 27.03
Pan_Ju W126 Indica I 24.56
Buphopa W127 Japonica Intermediate 25.69
TAINO_38 W128 Intermediate 24.71
2 W129 VI/Aromatic 29.14
LUSITANO W130 Temperate Japonica 18.79
IARI_6621 W131 Aus 30.72
Hsin_Hsing_Pai_Ku W132 Indica I 22.32
TD_70 W133 Indica Intermediate 25.3
Dara W134 Aus 25.82
Shimla_Early W135 Indica Intermediate 25.29
LA_PLATA_GENA_F.A. W136 VI/Aromatic 25.56
CM1;_HAIPONG W137 Indica Intermediate 22.47
4595 W138 Indica I 22.98
A_5 W139 Temperate Japonica 16.51
Ittikulama W140 Aus 23.34
DNJ_179 W141 Aus 24.2
DNJ_121 W142 Aus 24.12
Jyanak W143 Japonica Intermediate 27.59
Ao_Chiu_2_Hao W144 Indica I 24.61
GUYANE_1 W145 Indica Intermediate 22.55
10340 W146 Indica I 23.59
BR11 W147 Indica Intermediate 26.46
BR24 W148 Indica Intermediate 23.16
93072 W149 Indica Intermediate 23.42
108S W150 Indica II 26.38
C418 W151 Indica II 25.09
CDR22 W152 Indica II 25.52
Chenghui448 W153 Indica II 25.47
Fengaizhan W154 Indica II 25.44
Gang46B W155 Indica Intermediate 26.87
Gumei2hao W156 Indica I 24.77
Huajingxian74 W157 Indica Intermediate 22.19
M3122 W158 Intermediate 24.4
R644 W159 Indica II 24.16
Shennong265 W160 Temperate Japonica 16.62
Y134 W161 Indica II 22.05
Yuanjing7 W162 Temperate Japonica 18.55
Yuexiangzhan W163 Indica Intermediate 22.14
Zaoxian14 W164 Indica Intermediate 23.68
Zhong413 W165 Indica Intermediate 21.85
Zhongyouzao81 W166 Indica Intermediate 28.91
Zihui100 W167 Indica Intermediate 27.82
Bg90-2 W168 Indica II 24.52
IR72 W169 Indica II 23.68
PR106 W170 Indica II 22.32
TKM9 W171 Indica Intermediate 25.94
Amo13_(Sana) W172 Indica II 25.78
Khazar W173 Tropical Japonica 26.55
Gayabyeo W174 Indica II 22.49
Iksan438 W175 Intermediate 20.02
Milyang23 W176 Indica II 23.9
MR185 W177 Indica II 24.44
Manawthukha W178 Indica III 19.97
Shwe_Thwe_Yin_Hyv W179 Indica II 21.79
Bg300 W180 Indica Intermediate 25.08
Bg94-1 W181 Indica Intermediate 29.01
CR203 W182 Indica II 22.64
OM997 W183 Indica II 23.54
PSB_RC_28 W184 Indica II 23.65
PSB_RC_66 W185 Indica II 24.91
TEQING W186 Indica Intermediate -9.0
IR68552-55-3-2 W187 Indica Intermediate -9.0
IR66897B W188 Indica II 27.6
IR58025B W189 Indica II 27.33
Pusa_(Basmatil) W191 Intermediate 27.88
ASD16 W192 Intermediate 26.88
Dianjing W193 Temperate Japonica 23.73
F6 W194 Indica II 23.04
452 W195 Indica II 27.8
Ai-Zi-DAO W197 Indica II 27.51
Babaomi W198 Indica Intermediate 29.85
Diantun502 W199 Indica Intermediate 29.41
Heiheaihui W200 Indica Intermediate 24.18
Jiangxisimiao W201 Indica Intermediate 25.97
Laohudao W202 Indica Intermediate 26.92
Linjintangdao W203 Indica Intermediate 28.24
Mengguandamagu W204 Indica I 24.12
Pengshantieganzhan W205 Indica I 25.5
Wumanggaonuo W206 Indica Intermediate 29.36
Yunguang8hao W207 Temperate Japonica 25.54
Zhongchao123 W208 Temperate Japonica 23.01
Gizal159 W209 Temperate Japonica 22.48
Khao_Daeng W210 Indica I 28.32
Basmati370 W211 Indica II 21.45
Bhavani W212 Indica Intermediate 23.35
IR50 W213 Indica Intermediate 22.33
Jhona349 W214 Aus 23.2
Karnal_Local W215 Aus 23.99
Type3 W216 Indica II 28.64
IRAT352 W217 Indica Intermediate 24.99
TB154E-TB-2 W218 Indica Intermediate 24.51
Domsiah W219 VI/Aromatic 26.34
Tarommolai1 W220 VI/Aromatic 30.15
MR77_(seberang) W221 Indica Intermediate 22.37
ir6 W222 Indica II 28.67
At354 W223 Indica II 23.56
BG304 W224 Indica II 26.01
Lemont W225 Tropical Japonica 24.5
M401 W226 Temperate Japonica 22.42
OM1706 W227 Indica Intermediate 27.08
OM1723 W228 Indica II 24.6
X21 W229 Indica II 24.43
X22 W230 Indica II 24.2
X23 W231 Indica II 27.26
C70 W233 Indica Intermediate 22.41
Q5 W234 Indica Intermediate 22.56
Suiyangnian W235 Indica I 21.96
Pokhreli W236 Indica II 25.93
Govnd W237 Indica II 28.36
UPR191-66 W238 Indica II 23.76
ASD18 W239 Indica Intermediate 24.92
TGMS29 W240 Indica Intermediate 23.16
Phalguna W241 Indica II 26.78
Ajaya W242 Indica Intermediate 24.6
Dodda W243 Indica II 28.73
Palung_2 W244 Indica II 28.22
TKM6 W245 Indica Intermediate 24.1
RUSTYLATE/Zhong_413 W246 Indica Intermediate 21.24
Yenfangghu W247 Indica I 27.38
Heimichut W248 Indica I 24.37
Teksichut W249 Temperate Japonica 21.38
Eiko W250 Temperate Japonica 19.81
RUBIO W251 Tropical Japonica 20.7
SADRI_RICE_1 W252 VI/Aromatic 29.24
Sereendan_Kuning W253 Tropical Japonica 23.77
SAI-BUI-BAO W254 Tropical Japonica 24.26
ZIRI W255 VI/Aromatic 26.19
Dacca6 W256 VI/Aromatic 25.0
Latisai1 W257 Tropical Japonica 26.58
Amareles W258 VI/Aromatic 27.17
Up15 W259 Indica II 26.56
Uz-Rosz_275 W260 Tropical Japonica 24.17
Ginga W261 Intermediate 19.61
Bintapan W262 Indica I 20.48
SADAJIRA-19-303 W263 Indica Intermediate 27.48
CHOROFA W264 Indica Intermediate 22.59
La110 W265 Indica Intermediate 27.3
Yunjiang35 W266 Indica III 24.57
Yunhui72 W267 Indica Intermediate 24.02
Wudadaozhong W268 Indica Intermediate 23.72
IR65600-27-1-2-2 W269 Indica Intermediate 20.53
Yetuozai W270 Indica Intermediate 20.74
P59279 W271 Indica Intermediate 22.81
Tsao_wan_ching W272 Indica Intermediate 25.34
Anambae_ndanggalasi W273 Tropical Japonica 30.35
Er_chiu_ching W274 Indica I 16.08
Heen_goda_wee W275 Tropical Japonica 26.45
Pathma_wee W276 Indica III 28.38
Lakkhi_kajal W277 Aus 24.44
Moisdol W278 Aus 24.46
Jabor_sail W279 Aus 28.58
Sada_solay W280 Aus 22.08
Sholay W281 Temperate Japonica 27.37
Ma_ba_you_zhan W282 Indica Intermediate -9.0
Daegujo W283 Temperate Japonica 17.04
Paikasa W284 Tropical Japonica 21.73
Uwi W285 Tropical Japonica 23.2
Garia W286 Aus 22.85
AUS_449 W287 Aus 25.38
Dourado_Precoce W288 Tropical Japonica 24.56
IR_661-1-140-3-117 W289 Indica II 23.5
Aichi_Asahi W290 Temperate Japonica 23.56
IR_2071-625-1-252 W291 Indica II -9.0
Khoia_boro W292 Aus 22.92
IR_8 W293 Indica II 23.86
LABELLE W294 Intermediate -9.0
LEBONNET W295 Indica II 25.22
AUS_371 W296 Aus 24.46
AUS_373 W297 Aus 24.4
IR_36 W298 Indica II 22.47
JAYA W299 Indica Intermediate 20.36
NEW_BONNET W300 Tropical Japonica 24.66
IR_64 W301 Indica II 24.2
KUNTLAN W302 Tropical Japonica 25.93
British_Honduras_Creole W303 Tropical Japonica 23.45
CPSLO_17 W304 Intermediate 22.81
AKITAKOMACHI W305 Temperate Japonica 18.06
BASMATI_385 W306 VI/Aromatic 27.22
AGNO_(PSBRC28) W307 Indica II -9.0
PSBRC82 W308 Indica II 24.74
NSICRC122 W309 Indica II 24.88
BRRI_DHAN_29 W310 Indica Intermediate 26.79
PR_116 W311 Indica II 22.6
CIGEULIS W312 Indica II 22.67
OM_2517 W313 Indica II 22.99
BRRI_DHAN_28 W314 Indica II 25.0
CIBOGO W315 Indica II 22.16
NEDA W316 Indica II 24.31
CIHERANG W317 Indica II 22.74
Qiuqianbai W318 Indica I 23.02
Guangkexiangnuo W319 Temperate Japonica 26.28
Wenxiangnuo W320 Indica Intermediate 19.95
Laozaogu W321 Indica III 24.48
Lengshuinuo W322 Indica Intermediate 25.88
Feienuo2 W323 Japonica Intermediate 23.97
Zimangfeie W324 Japonica Intermediate 28.58
Guantuibaihe W325 Temperate Japonica 22.39
Haolvguangnian W326 Japonica Intermediate 30.23
JinghuB W327 Temperate Japonica 20.06
Sibeitichao6 W328 Intermediate 24.97
GPNO_5055 W329 Tropical Japonica 26.7
ASWINA_330 W330 Aus 21.77

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
vg0131209690 sf0131208646 1 31209690 4.89E-24 4.42E-07
vg0113096184 sf0113095158 1 13096184 2.29E-22 2.40E-07
vg0140366212 sf0140365169 1 40366212 2.48E-22 NA
vg0818632230 sf0818629517 8 18632230 8.35E-22 7.74E-06
vg0431823585 sf0431638478 4 31823585 1.29E-21 NA
vg0142404932 sf0142403888 1 42404932 1.52E-21 2.43E-06
vg0113048025 sf0113046999 1 13048025 2.56E-21 6.07E-08
vg0135794994 sf0135793951 1 35794994 5.03E-19 5.24E-07
vg0224948631 sf0224942762 2 24948631 7.29E-18 1.99E-08
vg0906920907 sf0906919907 9 6920907 1.38E-15 1.10E-06
vg1019412004 sf1019340559 10 19412004 1.23E-14 1.91E-07
vg0122975201 sf0122974157 1 22975201 2.23E-14 NA
vg0719776346 sf0719775353 7 19776346 NA 3.71E-11
vg1128198374 sf1127675153 11 28198374 NA 2.60E-07
vg1222592221 sf1222558660 12 22592221 NA 6.07E-07
vg1214836166 sf1214833507 12 14836166 NA 9.76E-07
vg0112109820 sf0112108794 1 12109820 NA 1.04E-06
vg1127402824 sf1126931211 11 27402824 NA 1.21E-06
vg0135716135 sf0135715092 1 35716135 NA 1.65E-06
vg0601360040 sf0601359041 6 1360040 NA 2.15E-06
vg0719951750 sf0719950757 7 19951750 NA 2.24E-06
vg0611539416 sf0611538417 6 11539416 NA 2.49E-06