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 Plant Height (cm) Distribution in All Population:

Phenotype Information Table:

Note: -9 means missing value.

Cultivar Name Cultivar ID Subpopulation Plant Height (cm)
Sadu-cho C001 Indica I 144.13
Dom_Sufid C002 VI/Aromatic 177.62
Gerdeh C003 Japonica Intermediate 141.57
Li-Jiang-Xin-Tuan-Hei-Gu_ C004 Temperate Japonica 140.4
AZUCENA C005 Tropical Japonica 163.33
Shan-Huang_Zhan-2-1_ C006 Indica Intermediate 108.23
Shan-Huang_Zhan-2-2_ C007 Indica Intermediate 107.97
Swarna C008 Indica Intermediate 87.47
MOROBEREKAN C009 Indica Intermediate 106.8
CYPRESS C010 Tropical Japonica 106.7
MILYANG_23 C011 Indica II 100.43
Tainong67 C012 Temperate Japonica 114.1
N_22 C013 Aus 150.43
M202 C014 Japonica Intermediate 82.43
Dular C015 Aus 152.2
Laoguangtou83 C016 Temperate Japonica 77.73
AnnongwangengB-1 C017 Temperate Japonica 92.67
AnnongwangengB-2 C018 Temperate Japonica 78.27
Aijiaonante C019 Indica I 80.25
Guangluai-4-1 C020 Indica I 78.17
xiangaizao10 C021 Indica I 80.83
JinnanteB C022 Indica I 77.3
Funingzipi C023 Temperate Japonica 89.39
zhenshan97B-1 C024 Indica I 85.33
Qingsiai16B C025 Indica Intermediate 82.83
Weiguo C026 Temperate Japonica 104.7
Dianrui409B C027 Indica Intermediate 100.47
Liaogeng287 C028 Temperate Japonica 86.97
Huhui628 C029 Japonica Intermediate 94.0
88B-1 C030 Indica Intermediate 99.57
88B-2 C031 Indica Intermediate 96.27
Longhuamaohu C032 Temperate Japonica 107.8
Lucaihao C033 Indica I 132.04
Zhonglouyihao1 C034 Temperate Japonica 110.5
Yelicanghua C035 Temperate Japonica 102.58
Shufeng101 C036 Indica Intermediate 95.07
Chengduai3hao C037 Indica I 105.33
Sankecui C038 Indica Intermediate 101.33
Gongju73 C039 Indica I 109.43
Jiabala C040 Indica I 102.46
Taishannuo C041 Indica I 113.1
Guichao2hao C042 Indica Intermediate 103.67
Huke3hao C043 Indica I 106.33
Teqingxuanhui C044 Indica Intermediate 104.33
Huangsiguizhan C045 Indica Intermediate 106.23
Xiangwanxian3hao C046 Indica Intermediate 172.37
Hanmadao-2 C047 Indica I 97.53
Zaoshunonghu6 C048 Temperate Japonica 97.33
Jinyou1hao C049 Indica Intermediate 103.13
Chengnongshuijing C050 Indica II 108.81
PeiC122 C051 Intermediate 99.9
Guihuahuang C052 Temperate Japonica 107.0
Momi C053 Indica Intermediate 116.63
Xiushui115 C054 Temperate Japonica 97.9
Sanbaili C055 Indica I 119.03
Jindao1hao C056 Temperate Japonica 99.03
Dandongludao C057 Japonica Intermediate 123.63
Liusha1hao C058 Indica I 103.7
Bawangbian1 C059 Indica I 113.43
Dongtingwanxian C060 Indica I 114.73
Yangdao2hao C061 Indica II 109.37
WH62 C062 Indica I 105.5
Geng87-304 C063 Temperate Japonica 115.54
Sugeng2hao C064 Temperate Japonica 103.3
Hongwan1hao C065 Indica Intermediate 109.07
Liushizao C066 Indica I 120.27
Muxiqiu C067 Temperate Japonica 117.93
Taizhongxianxuan2 C068 Indica II 109.6
Dangyu5hao C069 Indica II 115.8
Youmangzaogeng C070 Temperate Japonica 97.8
Laohuzhong C071 Temperate Japonica 128.2
Nantehao C072 Indica I 158.07
Esiniu C073 Indica I 167.83
cunsanli C074 Temperate Japonica 143.65
Huangkezaonian C075 Temperate Japonica 131.3
Benbanggu-1 C076 Indica I 127.36
Benbanggu-2 C077 Indica I 149.8
Qitoubaigu C078 Indica Intermediate 172.4
Muguanuo-1 C079 Temperate Japonica 143.32
Hanmadao-1 C080 Indica I 170.53
Heidu4 C081 Indica I 155.8
Gaoyangdiandao C082 Temperate Japonica 156.46
chikenuo C083 Temperate Japonica 174.7
Haobuka C084 Japonica Intermediate 157.62
Shanjiugu C085 Japonica Intermediate 147.1
Fanhaopi C086 Aus 147.17
Lixingeng C087 Temperate Japonica 141.27
Nangaogu-2 C088 Indica I 135.4
Tieganwu C089 Temperate Japonica 142.43
Sanlicun C090 Indica Intermediate 177.29
Meihuanuo-1 C091 Indica I 170.07
Meihuanuo-2 C092 Indica I 168.47
Xiangnuo-2 C093 Temperate Japonica 164.73
Menjiagao1 C094 Indica Intermediate 154.87
Xiaohonggu C095 Indica I 163.37
Jinxibai-1 C096 Indica Intermediate 166.4
Jinbaoyin C097 Indica Intermediate 172.2
Hongainuo C098 Indica Intermediate 178.27
WH099 C099 Indica Intermediate 176.8
WH100 C100 Indica Intermediate 166.45
Babaili C101 Temperate Japonica 192.07
Qiyuexian C102 Indica Intermediate 150.67
Yuyannuo-1 C103 Temperate Japonica 202.07
Mamagu-1 C104 Indica I 179.14
WH105 C105 Indica Intermediate 170.17
Hongkezhenuo C106 Temperate Japonica 191.0
Mowanggunei-2 C107 Indica III 193.67
Mamagu-2 C108 Indica I 156.8
WH109 C109 Indica I 162.1
Xianggu C110 Indica I 159.33
Ximaxian C111 Temperate Japonica 206.13
Jinnante43B C112 Indica I 77.43
Xiangzaoxian7hao C113 Indica Intermediate 73.77
80B C114 Indica Intermediate 86.87
WH115 C115 Indica II 80.4
LimingB C116 Temperate Japonica 87.03
Jiangnongzao1hao C117 Indica Intermediate 110.43
Gu154 C118 Indica II 88.27
Ninghui21 C119 Temperate Japonica 86.17
Shuiyuan300li C120 Temperate Japonica 97.63
XiangaiB C121 Indica Intermediate 150.67
Aituogu151 C122 Indica I 118.1
Taidongludao C123 Tropical Japonica 118.83
menjiading2 C124 Indica Intermediate 110.27
Jiefangxian C125 Indica I 145.65
Baikehualuo C127 Indica I 152.54
Liuyezhan C128 Indica I 158.23
Aihechi C129 Indica Intermediate 166.87
Xiangnuo-1 C130 Temperate Japonica 155.4
Xuanenchangtan C131 Indica I 165.07
Jinzhinuo C132 Indica Intermediate 169.67
Muguanuo-2 C133 Temperate Japonica 170.8
Wuzidui C134 Temperate Japonica 172.46
Xibaizhan C135 Indica I 136.39
Zegu C136 Indica I 182.14
Cungunuo C137 Temperate Japonica 170.0
Lengshuigu C138 Temperate Japonica 190.9
WH139 C139 Indica I 185.33
Wuzuhonggu C140 Indica I 164.4
Nangaogu-1 C141 Indica I 190.93
Mowanggunei-1 C142 Indica III 198.57
Qitougu C143 Indica I 170.36
Huangpinuo C144 Temperate Japonica 206.73
Zhenshan97B C145 Indica I 92.33
Nipponbare C146 Temperate Japonica 74.7
Minghui63 C147 Indica II 108.1
9311 C148 Indica II 117.2
Zhonghua11 C149 Temperate Japonica 102.47
Balilla C150 Temperate Japonica 90.32
Nanjing11 C151 Indica I 107.73
02428 C152 Temperate Japonica 100.0
IRAT109 C153 Tropical Japonica 105.07
Heigeng2hao C154 Temperate Japonica 77.43
Erjiunan1hao C155 Indica I 69.47
ChaoyangyihaoB C156 Indica I 73.13
L301B C157 Indica I 75.1
Guangluai15 C158 Indica I 85.17
ZhuzhenB C159 Indica I 95.8
Baoxie-7B C160 Indica Intermediate 83.68
Gzhenshan97B C161 Indica I 93.5
Nanxiongzaoyou C162 Indica Intermediate 97.77
Zaoshuxianghei C163 Indica II 104.17
IR661-1 C164 Indica II 95.53
Nanjing11-2 C165 Indica I 96.03
Gui630 C166 Indica Intermediate 94.73
76--1 C167 Indica Intermediate 108.23
Xugunuo C168 Indica Intermediate 104.87
Taizhongzailai1 C169 Indica Intermediate 118.07
Xiangwanxian1hao C170 Indica I 94.87
Xingguo C171 Temperate Japonica 140.61
Zhonghua8hao C172 Temperate Japonica 102.37
Aimakang C173 Indica I 114.4
JWR221 C174 Indica II 111.43
Zhengxian232 C175 Indica Intermediate 111.2
Chenwan3hao C176 Indica Intermediate 97.67
Maguzi C177 Temperate Japonica 112.87
Aimi C178 Indica I 107.67
Haobayong1 C179 Temperate Japonica 133.53
Wanlixian C180 Indica I 147.15
Feidongtangdao C181 Temperate Japonica 137.9
Hengxianliangchun C182 Indica I 161.2
Leihuozhan C183 Indica I 160.57
Baikezaohe C184 Indica I 156.17
Haomake(K) C185 Japonica Intermediate 145.0
Sanbangqishiluo C186 Japonica Intermediate 180.0
Niankenuo C187 Temperate Japonica 144.47
Yangkenuo C188 Temperate Japonica 137.8
Putaohuang C189 Temperate Japonica 162.36
Xiangdao C190 Indica I 160.9
Younian C191 Indica I 171.27
Wukezhan C192 Indica Intermediate 185.07
Zhongnong4hao C193 Indica I 158.4
Minbeiwanxian C194 Indica Intermediate 173.4
Hongmisandan C195 Temperate Japonica 171.79
Yuyannuo-2 C196 Temperate Japonica 193.0
Maweinian C197 Indica I 175.77
Zinuo C198 Indica Intermediate 173.77
Beizinuo C199 Indica I 187.53
Biwusheng C200 Indica I 189.1
Yizhixiang C201 Indica Intermediate 194.93
Xiaobaimi C202 Indica I 176.33
Zaoxian240 C203 Indica I 77.33
Mayang_Khang W001 Indica I 146.4
E_B_Gopher W002 Tropical Japonica 157.4
C_5560 W003 Tropical Japonica 140.4
Quinimpol W004 Tropical Japonica 158.2
TAICHU_MOCHI_59 W005 Tropical Japonica 133.8
WC_2811 W006 Tropical Japonica 149.8
Criollo_Chivacoa_2 W007 Tropical Japonica 150.8
Secano_do_Brazil W008 Tropical Japonica 147.0
BERLIN W009 Indica III 193.8
Sel._No._388 W010 Japonica Intermediate 135.0
SHIMIZU_MOCHI W011 Temperate Japonica 116.8
KRASNODARSKIJ_424 W012 Temperate Japonica 100.8
Pergonil_15 W013 Temperate Japonica 98.6
Red_Khosha_Cerma W014 VI/Aromatic 158.0
Safut_Khosha W015 Aus 157.8
NORIN_11 W016 Temperate Japonica 78.8
R_75 W017 Tropical Japonica 126.2
UZ_ROSZ_M38 W018 Temperate Japonica 93.4
H57-3-1 W019 Japonica Intermediate 124.8
IARI_6626 W020 Aus 136.6
Khao_Luang W021 Japonica Intermediate 142.4
C_8429 W022 Tropical Japonica 146.0
Warrangal_Culture_1252 W023 Indica III 165.8
Padi_Pohon_Batu W024 Tropical Japonica 139.8
NC_1/536 W025 Aus 154.2
Won_Son_Zo_No._11 W026 Indica I 160.6
Chacareiro_Uruguay W027 Temperate Japonica 116.8
Doble_Carolina W028 Aus 164.2
Ai_Chueh_Ta_Pai_Ku W029 Indica Intermediate 147.8
Thang_10 W030 Indica Intermediate 172.6
Sipirasikkam W031 Indica I 159.6
TJ W032 Indica I 159.6
PD_46 W033 Indica I 155.0
PATNAI_6 W034 Aus 165.8
K8C-263-3 W035 Indica Intermediate 196.2
Chun_118-33 W036 Indica I 157.8
Manga_Kely_694 W037 Indica Intermediate 173.8
BLUE_STICK W038 Temperate Japonica 138.0
Nam_Dawk_Mai W039 Indica I 152.0
INIAP_7 W040 Indica II 108.4
Onu_B W041 Tropical Japonica 169.4
Red W042 Indica Intermediate 185.4
Dichroa_Alef_Uslkij W043 Indica Intermediate 105.4
BKN_6987-68-14 W044 Indica II 98.8
KUBANETS_508 W045 Temperate Japonica 98.0
IR_9660-48-1-1-2 W046 Indica II 96.0
Jumli_dhan W047 Japonica Intermediate 203.2
N-2703 W048 Aus 190.2
PHUDUGEY W049 Aus 163.8
Ak_Tokhum W050 VI/Aromatic 174.8
RP2151-173-1-8 W051 Indica II 107.4
HB-6-2 W052 Temperate Japonica 98.6
GPNO_1106 W053 Tropical Japonica 152.6
Toga W054 Indica Intermediate 190.2
Ragasu W055 Intermediate 171.4
Tamanishiki W056 Temperate Japonica 129.0
Grassy W057 Tropical Japonica 182.2
Kao_Chio_Lin_Chou W058 Indica I 150.6
Niwahutaw_Mochi W059 Temperate Japonica 115.8
Somewake W060 Temperate Japonica 119.4
Ardito W061 Japonica Intermediate 121.8
NANTON_NO._131 W062 Tropical Japonica 153.4
Vary_Tarva_Osla W063 Japonica Intermediate 114.2
CSORNUJ W064 Temperate Japonica 106.2
R_67 W065 Tropical Japonica 149.4
IR_238 W066 Indica Intermediate 102.2
Mitak W067 Tropical Japonica 152.6
Gazan W068 Temperate Japonica 139.8
99216 W069 Aus 146.4
Shui_Ya_Jien W070 Indica Intermediate 160.4
AKP_4 W071 Indica Intermediate 104.6
SORNAVARI W072 Aus 154.0
IR_2061-214-2-3 W073 Indica II 98.8
TAINUNG_45 W074 Indica Intermediate 162.2
Sapundali_Local W075 Indica Intermediate 186.2
Tauli W076 Aus 155.0
79 W077 VI/Aromatic 182.4
B805D-MR-16-8-3 W078 Indica Intermediate 96.8
A_152 W079 Intermediate 147.6
UZ_ROS_59 W080 Indica I 141.4
Gasym_Hany W081 VI/Aromatic 130.2
Celiaj W082 Temperate Japonica 125.0
CNTLR80076-44-1-1-1 W083 Indica Intermediate 116.4
IR_58614-B-B-8-2 W084 Indica Intermediate 114.4
KECHENGNUO_NO._4 W085 Indica Intermediate 118.6
4484 W086 Indica II 103.4
YOU-I_B W087 Indica I 77.2
CHUNJIANGZAO_NO._1 W088 Temperate Japonica 70.6
Egyptian_Wild_Type W089 Indica III 136.4
C.B._II W090 Aus 137.4
Gallawa W091 Aus 148.2
Karayal W092 Aus 144.8
Srav_Prapay W093 Indica III 133.0
Nang_Bang_Bentre W094 Aus 141.8
DJ_24 W095 Aus 165.8
DJ_102 W096 Aus 165.2
Santhi_990 W097 Intermediate 137.0
UZ_ROS_7-13 W098 Aus 158.8
SL_22-620 W099 Aus 149.0
Spin_Mere W100 Aus 177.2
AMANE W101 Indica Intermediate 149.8
Padi_Tarab_Arab W102 Tropical Japonica 182.6
P_35 W103 Aus 111.4
CAROLINO_164 W104 Aus 145.4
HKG_98 W105 Aus 156.6
Daudzai_Field_Mix W106 Aus 169.4
JP_5 W107 Indica Intermediate 163.2
Hi_Muke W108 Aus 161.2
WIR_911 W109 Temperate Japonica 99.4
Lua_Chua_Chan W110 Tropical Japonica 154.4
Sereno W111 Indica III 203.6
ARC_10633 W112 Indica III 167.2
Simpor W113 Tropical Japonica 141.0
Heo_Trang W114 Indica III 181.4
THAVALU W115 Aus 153.4
WC_10253 W116 Tropical Japonica 175.4
KRASNODARSKIJ_3352 W117 Temperate Japonica 98.6
EMBRAPA_1200 W118 Tropical Japonica 84.2
WAB462-10-3-1 W119 Tropical Japonica 95.4
Bombilla W120 Temperate Japonica 109.6
TCHAMPA W121 Aus 177.6
BHIM_DHAN W122 Japonica Intermediate 169.8
WC_3532 W123 Tropical Japonica 140.8
Kin_Shan_Zim W124 Indica I 134.0
Yong_Chal_Byo W125 Intermediate 152.0
Pan_Ju W126 Indica I 157.6
Buphopa W127 Japonica Intermediate 142.6
TAINO_38 W128 Intermediate 149.8
2 W129 VI/Aromatic 151.2
LUSITANO W130 Temperate Japonica 92.6
IARI_6621 W131 Aus 161.0
Hsin_Hsing_Pai_Ku W132 Indica I 156.0
TD_70 W133 Indica Intermediate 157.8
Dara W134 Aus 150.0
Shimla_Early W135 Indica Intermediate 172.8
LA_PLATA_GENA_F.A. W136 VI/Aromatic 188.6
CM1;_HAIPONG W137 Indica Intermediate 125.6
4595 W138 Indica I 102.0
A_5 W139 Temperate Japonica 96.4
Ittikulama W140 Aus 145.8
DNJ_179 W141 Aus 151.6
DNJ_121 W142 Aus 149.4
Jyanak W143 Japonica Intermediate 196.8
Ao_Chiu_2_Hao W144 Indica I 168.4
GUYANE_1 W145 Indica Intermediate 177.4
10340 W146 Indica I 127.4
BR11 W147 Indica Intermediate 117.6
BR24 W148 Indica Intermediate 168.4
93072 W149 Indica Intermediate 112.6
108S W150 Indica II 104.6
C418 W151 Indica II 98.0
CDR22 W152 Indica II 110.0
Chenghui448 W153 Indica II 103.8
Fengaizhan W154 Indica II 102.4
Gang46B W155 Indica Intermediate 98.4
Gumei2hao W156 Indica I 99.2
Huajingxian74 W157 Indica Intermediate 95.2
M3122 W158 Intermediate 107.2
R644 W159 Indica II 95.2
Shennong265 W160 Temperate Japonica 96.0
Y134 W161 Indica II 102.0
Yuanjing7 W162 Temperate Japonica 98.4
Yuexiangzhan W163 Indica Intermediate 91.4
Zaoxian14 W164 Indica Intermediate 88.6
Zhong413 W165 Indica Intermediate 103.8
Zhongyouzao81 W166 Indica Intermediate 137.8
Zihui100 W167 Indica Intermediate 135.2
Bg90-2 W168 Indica II 101.4
IR72 W169 Indica II 93.6
PR106 W170 Indica II 90.6
TKM9 W171 Indica Intermediate 96.8
Amo13_(Sana) W172 Indica II 100.2
Khazar W173 Tropical Japonica 121.6
Gayabyeo W174 Indica II 84.0
Iksan438 W175 Intermediate 101.0
Milyang23 W176 Indica II 101.4
MR185 W177 Indica II 100.0
Manawthukha W178 Indica III 97.8
Shwe_Thwe_Yin_Hyv W179 Indica II 93.8
Bg300 W180 Indica Intermediate 108.0
Bg94-1 W181 Indica Intermediate 105.8
CR203 W182 Indica II 101.2
OM997 W183 Indica II 96.6
PSB_RC_28 W184 Indica II 98.0
PSB_RC_66 W185 Indica II 95.6
TEQING W186 Indica Intermediate 98.2
IR68552-55-3-2 W187 Indica Intermediate 105.2
IR66897B W188 Indica II 102.0
IR58025B W189 Indica II 114.2
Pusa_(Basmatil) W191 Intermediate 121.0
ASD16 W192 Intermediate 121.2
Dianjing W193 Temperate Japonica 121.4
F6 W194 Indica II 108.8
452 W195 Indica II 123.8
Ai-Zi-DAO W197 Indica II 112.8
Babaomi W198 Indica Intermediate 180.0
Diantun502 W199 Indica Intermediate 125.2
Heiheaihui W200 Indica Intermediate 115.4
Jiangxisimiao W201 Indica Intermediate 108.2
Laohudao W202 Indica Intermediate 112.0
Linjintangdao W203 Indica Intermediate 185.6
Mengguandamagu W204 Indica I 154.2
Pengshantieganzhan W205 Indica I 161.8
Wumanggaonuo W206 Indica Intermediate 112.0
Yunguang8hao W207 Temperate Japonica 114.6
Zhongchao123 W208 Temperate Japonica 119.6
Gizal159 W209 Temperate Japonica 142.4
Khao_Daeng W210 Indica I 166.4
Basmati370 W211 Indica II 97.0
Bhavani W212 Indica Intermediate 159.6
IR50 W213 Indica Intermediate 137.4
Jhona349 W214 Aus 153.8
Karnal_Local W215 Aus 154.4
Type3 W216 Indica II 113.8
IRAT352 W217 Indica Intermediate 133.8
TB154E-TB-2 W218 Indica Intermediate 133.6
Domsiah W219 VI/Aromatic 161.0
Tarommolai1 W220 VI/Aromatic 172.0
MR77_(seberang) W221 Indica Intermediate 112.4
ir6 W222 Indica II 115.6
At354 W223 Indica II 103.6
BG304 W224 Indica II 116.0
Lemont W225 Tropical Japonica 90.2
M401 W226 Temperate Japonica 93.2
OM1706 W227 Indica Intermediate 106.6
OM1723 W228 Indica II 115.0
X21 W229 Indica II 119.4
X22 W230 Indica II -9.0
X23 W231 Indica II 117.0
C70 W233 Indica Intermediate 114.2
Q5 W234 Indica Intermediate 112.8
Suiyangnian W235 Indica I 148.4
Pokhreli W236 Indica II 101.8
Govnd W237 Indica II 115.8
UPR191-66 W238 Indica II 95.4
ASD18 W239 Indica Intermediate 109.8
TGMS29 W240 Indica Intermediate 111.6
Phalguna W241 Indica II 119.2
Ajaya W242 Indica Intermediate 106.2
Dodda W243 Indica II 105.6
Palung_2 W244 Indica II 102.4
TKM6 W245 Indica Intermediate 121.6
RUSTYLATE/Zhong_413 W246 Indica Intermediate 151.0
Yenfangghu W247 Indica I 170.2
Heimichut W248 Indica I 145.4
Teksichut W249 Temperate Japonica 125.8
Eiko W250 Temperate Japonica 123.2
RUBIO W251 Tropical Japonica 129.8
SADRI_RICE_1 W252 VI/Aromatic 178.0
Sereendan_Kuning W253 Tropical Japonica 146.2
SAI-BUI-BAO W254 Tropical Japonica 143.4
ZIRI W255 VI/Aromatic 145.8
Dacca6 W256 VI/Aromatic 160.0
Latisai1 W257 Tropical Japonica 171.6
Amareles W258 VI/Aromatic 158.4
Up15 W259 Indica II 106.0
Uz-Rosz_275 W260 Tropical Japonica 134.0
Ginga W261 Intermediate 132.4
Bintapan W262 Indica I 83.8
SADAJIRA-19-303 W263 Indica Intermediate 114.8
CHOROFA W264 Indica Intermediate 91.4
La110 W265 Indica Intermediate 120.4
Yunjiang35 W266 Indica III 132.6
Yunhui72 W267 Indica Intermediate 114.4
Wudadaozhong W268 Indica Intermediate 91.4
IR65600-27-1-2-2 W269 Indica Intermediate 96.0
Yetuozai W270 Indica Intermediate 99.0
P59279 W271 Indica Intermediate 95.8
Tsao_wan_ching W272 Indica Intermediate 155.6
Anambae_ndanggalasi W273 Tropical Japonica 156.2
Er_chiu_ching W274 Indica I 70.8
Heen_goda_wee W275 Tropical Japonica 148.2
Pathma_wee W276 Indica III 160.2
Lakkhi_kajal W277 Aus 142.0
Moisdol W278 Aus 146.6
Jabor_sail W279 Aus 166.6
Sada_solay W280 Aus 145.8
Sholay W281 Temperate Japonica 150.0
Ma_ba_you_zhan W282 Indica Intermediate 134.8
Daegujo W283 Temperate Japonica 68.4
Paikasa W284 Tropical Japonica 135.4
Uwi W285 Tropical Japonica 134.6
Garia W286 Aus 154.8
AUS_449 W287 Aus 150.2
Dourado_Precoce W288 Tropical Japonica 144.2
IR_661-1-140-3-117 W289 Indica II 104.4
Aichi_Asahi W290 Temperate Japonica 116.4
IR_2071-625-1-252 W291 Indica II 96.6
Khoia_boro W292 Aus 164.2
IR_8 W293 Indica II 83.4
LABELLE W294 Intermediate 118.8
LEBONNET W295 Indica II 99.6
AUS_371 W296 Aus 138.8
AUS_373 W297 Aus 161.2
IR_36 W298 Indica II 95.2
JAYA W299 Indica Intermediate 90.8
NEW_BONNET W300 Tropical Japonica 107.2
IR_64 W301 Indica II 95.6
KUNTLAN W302 Tropical Japonica 166.8
British_Honduras_Creole W303 Tropical Japonica 157.8
CPSLO_17 W304 Intermediate 95.8
AKITAKOMACHI W305 Temperate Japonica 74.0
BASMATI_385 W306 VI/Aromatic 129.6
AGNO_(PSBRC28) W307 Indica II 101.0
PSBRC82 W308 Indica II 109.4
NSICRC122 W309 Indica II 112.2
BRRI_DHAN_29 W310 Indica Intermediate 111.2
PR_116 W311 Indica II 100.6
CIGEULIS W312 Indica II 111.6
OM_2517 W313 Indica II 110.4
BRRI_DHAN_28 W314 Indica II 111.2
CIBOGO W315 Indica II 102.0
NEDA W316 Indica II 99.0
CIHERANG W317 Indica II 110.4
Qiuqianbai W318 Indica I 139.3
Guangkexiangnuo W319 Temperate Japonica 174.2
Wenxiangnuo W320 Indica Intermediate 177.2
Laozaogu W321 Indica III 160.6
Lengshuinuo W322 Indica Intermediate 109.0
Feienuo2 W323 Japonica Intermediate 136.4
Zimangfeie W324 Japonica Intermediate 156.0
Guantuibaihe W325 Temperate Japonica 135.8
Haolvguangnian W326 Japonica Intermediate 155.4
JinghuB W327 Temperate Japonica 89.8
Sibeitichao6 W328 Intermediate 117.4
GPNO_5055 W329 Tropical Japonica 147.4
ASWINA_330 W330 Aus 149.6

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
vg0131664768 sf0131663724 1 31664768 2.28E-44 NA
vg1207667840 sf1207665244 12 7667840 3.89E-43 NA
vg0128525986 sf0128524941 1 28525986 5.01E-42 NA
vg0138999212 sf0138998169 1 38999212 5.60E-40 4.56E-07
vg0138428840 sf0138427797 1 38428840 1.76E-38 6.17E-06
vg0138418739 sf0138417696 1 38418739 2.20E-38 3.27E-08
vg0135642980 sf0135641937 1 35642980 8.48E-29 2.67E-08
vg0138608956 sf0138607913 1 38608956 3.63E-26 6.59E-08
vg0135617816 sf0135616773 1 35617816 1.54E-24 9.51E-09
vg0819793460 sf0819790747 8 19793460 2.64E-22 3.11E-06
vg0419435602 sf0421181622 4 19435602 NA 1.01E-11
vg0603483061 sf0603482062 6 3483061 NA 2.01E-08
vg0904094998 sf0904093998 9 4094998 NA 3.55E-08
vg0133440209 sf0133439165 1 33440209 NA 5.04E-08
vg0904282939 sf0904281939 9 4282939 NA 5.30E-08
vg0719727339 sf0719726346 7 19727339 NA 9.83E-08
vg0713178880 sf0713177887 7 13178880 NA 1.60E-07
vg1123563633 sf1123097503 11 23563633 NA 1.85E-07
vg0719727299 sf0719726306 7 19727299 NA 3.20E-07
vg0719834473 sf0719833480 7 19834473 NA 4.01E-07
vg0405463422 sf0405458863 4 5463422 NA 4.36E-07
vg0112116426 sf0112115400 1 12116426 NA 6.25E-07
vg0130976864 sf0130975820 1 30976864 NA 7.14E-07
vg0405463763 sf0405459204 4 5463763 NA 1.21E-06
vg1019044175 sf1018972732 10 19044175 NA 1.69E-06
vg0133488216 sf0133487172 1 33488216 NA 4.15E-06