CN112695108B - Reproductive performance SNP (single nucleotide polymorphism) locus combination of meat sheep and application thereof - Google Patents

Reproductive performance SNP (single nucleotide polymorphism) locus combination of meat sheep and application thereof Download PDF

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CN112695108B
CN112695108B CN202110316662.XA CN202110316662A CN112695108B CN 112695108 B CN112695108 B CN 112695108B CN 202110316662 A CN202110316662 A CN 202110316662A CN 112695108 B CN112695108 B CN 112695108B
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snp
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reproductive performance
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CN112695108A (en
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李孟华
李心
罗凌云
杨继
吕锋骅
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Zhongke YUNPU (Inner Mongolia) gene Biotechnology Co.,Ltd.
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China Agricultural University
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    • C12Q1/6813—Hybridisation assays
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
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    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/124—Animal traits, i.e. production traits, including athletic performance or the like
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    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/156—Polymorphic or mutational markers

Abstract

The invention discloses a breeding performance SNP locus combination of meat sheep and application thereof, and relates to the technical field of gene breeding, wherein the locus combination provided by the invention comprises 2917 SNP loci, the physical position information of the SNP loci is determined based on sheep v4.0 genome sequence comparison, the SNP loci are SNP0001-SNP2917, and the sheep individuals are subjected to genetic evaluation based on 2917 SNP locus combinations, so that the individual selection of early propagation traits which are difficult to measure can be carried out, the generation interval is shortened, the breeding process is accelerated, and a great amount of breeding cost is saved.

Description

Reproductive performance SNP (single nucleotide polymorphism) locus combination of meat sheep and application thereof
Technical Field
The invention relates to the technical field of biology, in particular to a breeding performance SNP locus combination of a meat sheep and application thereof.
Background
Sheep are the first domesticated animals and the most common bred animals in China, and with the activity and selection of human beings, sheep varieties with different high-quality resources are gradually formed, however, in actual production, the varieties of sheep at home and abroad are various, the individual difference is large, and the variety with specific target characters needs to be selected for breeding production, so that the acquisition of higher economic value or market benefit becomes one of the great problems in sheep breeding.
In the history of sheep selective breeding, the exploration from empirical breeding to breeding theory and method is performed, and the selective theory, the pure line theory, backcross breeding, recurrent breeding, mutation breeding, single seed transmission and ideal plant type are provided; further to marker assisted selection breeding, a variety of markers have been explored, such as amplified fragment length polymorphism marker assisted selection (AFLP), microsatellite marker assisted selection (SSR), and single nucleotide polymorphism marker assisted Selection (SNP).
At present, the molecular marker technology is more and more emphasized due to its advantages of high accuracy, strong operability, etc., and among them, the molecular marker technology based on Single Nucleotide Polymorphisms (SNPs) is more and more widely applied. SNP is taken as a genetic molecular marker in biological genomes, and plays more and more important roles in the aspects of animal and plant genetic evolution analysis, important economic shape screening, molecular breeding and the like. The SNP chip based on the SNP is a convenient and efficient tool for modern genetic breeding, and is easy to realize high-throughput and automatic detection of the SNP, can detect the change of each base pair on genomic DNA, including insertion, deletion, inversion, conversion and the like, becomes an ideal SNP detection technology, and is increasingly applied to the field of sheep breeding.
The current commercial SNP chips of Sheep are Illumina provine SNP50 Beadchip (50K), Illumina sheet HD Genotyping Beadchip (680K) and Illumina provine LD (5K), the former two of which are the most commonly used in academic production research. The Illumina orange SNP50 Beadchip is developed by Illumina company and research teams and institutions such as UCSC, CSIRO, USDA and Agreearch, comprises more than 54K SNP sites covering the whole genome of sheep, and can be used for the research of genetic breeding, whole genome association analysis, quantitative trait locus positioning, gene optimization, comparative genomics and the like. The Illumina sheet HD Genotyping foundry (680K) is an SNP chip produced by Illumina company, and is a high-density chip amplified by the International Sheep genome Association (ISGC) on the basis of the Ovine SNP 50. However, the existing sheep SNP chip is mainly based on data of western sheep, lacks of SNP data of combination of Chinese sheep varieties and foreign sheep varieties, has the problems of insufficient site uniformity, insufficient embodiment of functional sites and regions, extremely low frequency sites of over 10 percent of sites in Chinese sheep groups and the like, and has very important significance in designing the SNP chip which is suitable for Chinese sheep groups and can rapidly and effectively detect the reproductive function.
Disclosure of Invention
In order to meet the requirements of chip site function detection and function research on reproductive performance direction in current breeding production in China, the invention provides high-depth whole genome resequencing data based on 16 wild sheep (Asia Mufolen) and 232 family sheep individuals in the world, a meat sheep reproductive performance SNP site which is accurate in detection, convenient to use and wide in market prospect is obtained by taking a sheep v4.0 genome as reference and combining with the existing research related to the reproductive function of sheep, and the site can be used for screening sheep varieties, identifying the sheep varieties, breeding the sheep, protecting germplasm resources and improving the germplasm resources.
To achieve the technical object of the present invention, the first aspect of the present invention provides a breeding performance SNP site combination for meat sheep, wherein the SNPs are contained in gene segments of UBE2Q1, DGCR8, BMPR1B, PAPPA and IGF 1.
Wherein, the SNP locus combination comprises 2917 SNP loci, and the physical position information of the SNP loci is determined based on the sheep v4.0 genome sequence alignment, and is specifically shown in Table 1.
TABLE 1 physical location information for SNP site combinations provided herein
Figure DEST_PATH_IMAGE002
Figure DEST_PATH_IMAGE004
snp0057 1 103194136 T C snp1030 3 170968857 G C snp2003 6 29411430 T C
snp0058
1 103194223 G T snp1031 3 170969176 G A snp2004 6 29411848 G T
snp0059
1 103194299 T C snp1032 3 170969227 A G snp2005 6 29411963 T C
snp0060
1 103194377 T C snp1033 3 170969474 T C snp2006 6 29412045 G T
snp0061
1 103194504 C T snp1034 3 170969554 C T snp2007 6 29412111 A G
snp0062
1 103194815 A G snp1035 3 170969563 T C snp2008 6 29412534 A G
snp0063
1 103194973 G A snp1036 3 170969570 G C snp2009 6 29412538 A G
snp0064
1 103196198 T C snp1037 3 170969606 G A snp2010 6 29412865 A C
snp0065
1 103196337 A C snp1038 3 170969689 A G snp2011 6 29412886 A G
snp0066
1 103196503 G A snp1039 3 170969939 C A snp2012 6 29413057 T G
snp0067
1 103196509 C T snp1040 3 170969960 T C snp2013 6 29413152 T A
snp0068
1 103196688 A G snp1041 3 170970210 T C snp2014 6 29413222 C T
snp0069
1 103196909 T C snp1042 3 170970463 T C snp2015 6 29413239 C T
snp0070
1 103197011 G A snp1043 3 170970576 T C snp2016 6 29413259 A G
snp0071
1 103197026 C A snp1044 3 170971057 T C snp2017 6 29413631 A T
snp0072
1 103197048 A G snp1045 3 170971088 T C snp2018 6 29413767 T C
snp0073
1 103197692 T C snp1046 3 170971112 T C snp2019 6 29413807 T C
snp0074
1 103197945 A G snp1047 3 170971520 A G snp2020 6 29413843 C T
snp0075
1 103198027 G A snp1048 3 170971820 A G snp2021 6 29413847 C T
snp0076
1 103198093 G C snp1049 3 170971842 T G snp2022 6 29413985 A C
snp0077
1 103198776 A G snp1050 3 170971900 C T snp2023 6 29414026 C T
snp0078
1 103198859 G A snp1051 3 170972613 A G snp2024 6 29414039 A G
snp0079
1 103198867 A G snp1052 3 170972632 A G snp2025 6 29415867 A G
snp0080
1 103198881 T C snp1053 3 170972638 A G snp2026 6 29415924 C T
snp0081
1 103199336 G A snp1054 3 170972922 T C snp2027 6 29415986 A G
snp0082
1 103199434 C A snp1055 3 170972944 C T snp2028 6 29416051 A G
snp0083
1 103199827 C A snp1056 3 170973065 G C snp2029 6 29416093 T C
snp0084
1 103200109 A G snp1057 3 170973180 C G snp2030 6 29416157 C A
snp0085
1 103200156 C T snp1058 3 170973347 G A snp2031 6 29416160 T C
snp0086
1 103200175 G A snp1059 3 170973462 G A snp2032 6 29416307 G C
snp0087
1 103200409 A T snp1060 3 170973715 A G snp2033 6 29416432 T A
snp0088
1 103200530 A G snp1061 3 170973797 T C snp2034 6 29416433 C A
snp0089 1 103200559 G T snp1062 3 170974162 A C snp2035 6 29416474 T C
snp0090
1 103200865 C T snp1063 3 170974212 G A snp2036 6 29416571 T C
snp0091
1 103200931 T C snp1064 3 170974323 G A snp2037 6 29416896 G A
snp0092
1 103201566 T C snp1065 3 170974632 A G snp2038 6 29416898 T C
snp0093
1 103201796 A G snp1066 3 170974634 A G snp2039 6 29416959 A C
snp0094
1 103201893 G A snp1067 3 170975350 A G snp2040 6 29417078 C T
snp0095
1 103202037 C A snp1068 3 170975408 C T snp2041 6 29417193 A C
snp0096
1 103202230 G A snp1069 3 170975745 C T snp2042 6 29417301 G T
snp0097
1 103202545 C T snp1070 3 170975846 G A snp2043 6 29417399 T C
snp0098
1 103202670 T A snp1071 3 170975934 G A snp2044 6 29417514 C T
snp0099
1 103202725 G A snp1072 3 170975961 A C snp2045 6 29417592 T A
snp0100 1 103202801 A G snp1073 3 170976006 G A snp2046 6 29417636 T C
snp0101
1 103202932 G A snp1074 3 170976009 A C snp2047 6 29417725 A G
snp0102
1 103203007 A C snp1075 3 170976025 C T snp2048 6 29417797 C T
snp0103
1 103203030 G A snp1076 3 170976122 A G snp2049 6 29417842 T C
snp0104
1 103203114 C T snp1077 3 170976280 T C snp2050 6 29417968 C T
snp0105
1 103203115 G A snp1078 3 170976791 A G snp2051 6 29418153 T C
snp0106
1 103203424 A G snp1079 3 170976853 T C snp2052 6 29418157 G A
snp0107 1 103203425 T C snp1080 3 170976879 A G snp2053 6 29418241 C T
snp0108
1 103203690 A C snp1081 3 170977060 A C snp2054 6 29418284 C T
snp0109
1 103203794 A G snp1082 3 170977146 T C snp2055 6 29418286 A T
snp0110
1 103204297 T C snp1083 3 170977468 G C snp2056 6 29418477 C T
snp0111
1 103204399 G T snp1084 3 170977612 G A snp2057 6 29418532 C T
snp0112
1 103204500 G A snp1085 3 170977696 A G snp2058 6 29418912 G A
snp0113
1 103204537 G C snp1086 3 170977867 G A snp2059 6 29418939 T G
snp0114
1 103204539 G A snp1087 3 170977883 G A snp2060 6 29419058 C G
snp0115 1 103204587 G A snp1088 3 170977962 A G snp2061 6 29419148 A C
snp0116
1 103204749 T C snp1089 3 170980655 C G snp2062 6 29419376 C A
snp0117
1 103204777 G A snp1090 3 170980922 T C snp2063 6 29419588 T G
snp0118
1 103204806 T C snp1091 3 170980974 G A snp2064 6 29419592 T C
snp0119
1 103204809 T G snp1092 3 170981185 T C snp2065 6 29419891 C T
snp0120
1 103204874 T G snp1093 3 170981234 G C snp2066 6 29419925 T C
snp0121
1 103204892 C T snp1094 3 170981872 C T snp2067 6 29419967 C A
snp0122 1 103204977 A G snp1095 3 170981930 A G snp2068 6 29420062 A G
snp0123
1 103205019 A C snp1096 3 170981963 G A snp2069 6 29420501 C T
snp0124
1 103205061 G A snp1097 3 170982092 G A snp2070 6 29420794 C T
snp0125
1 103205105 C T snp1098 3 170982278 T G snp2071 6 29421285 C T
snp0126
1 103205152 A G snp1099 3 170982476 A G snp2072 6 29421393 T C
snp0127
1 103205188 T G snp1100 3 170983138 A G snp2073 6 29421729 T A
snp0128 1 103205352 C A snp1101 3 170983181 C T snp2074 6 29422722 T C
snp0129
1 103205367 T C snp1102 3 170983205 C A snp2075 6 29423475 T G
snp0130
1 103205472 C T snp1103 3 170983298 C T snp2076 6 29423564 A G
snp0131
1 103205475 T C snp1104 3 170983349 T C snp2077 6 29423610 A C
snp0132
1 103206090 C T snp1105 3 170983355 A G snp2078 6 29423697 T G
snp0133
1 103206164 G A snp1106 3 170983465 A C snp2079 6 29423751 T C
snp0134
1 103206353 C T snp1107 3 170983520 C T snp2080 6 29423903 T C
snp0135
1 103206398 A G snp1108 3 170983544 A G snp2081 6 29424483 A C
snp0136
1 103206410 G A snp1109 3 170983816 T A snp2082 6 29424493 C T
snp0137
1 103206586 G A snp1110 3 170983862 G A snp2083 6 29424526 G A
snp0138 1 103206692 A T snp1111 3 170983991 T C snp2084 6 29424595 T A
snp0139
1 103206934 G A snp1112 3 170984072 C T snp2085 6 29424732 G T
snp0140
1 103206981 G A snp1113 3 170984347 C A snp2086 6 29424821 G C
snp0141
1 103207118 A G snp1114 3 170984407 C T snp2087 6 29425194 A G
snp0142
1 103207127 T G snp1115 3 170984957 C A snp2088 6 29426475 T A
snp0143 1 103207269 C T snp1116 3 170984997 G A snp2089 6 29427513 T G
snp0144
1 103207605 A G snp1117 3 170985123 C A snp2090 6 29427620 A G
snp0145
1 103207625 G A snp1118 3 170985133 A C snp2091 6 29427859 G A
snp0146 1 103207700 G A snp1119 3 170985417 C T snp2092 6 29427900 C T
snp0147
1 103207701 T C snp1120 3 170985453 T A snp2093 6 29427973 C G
snp0148
1 103208037 T C snp1121 3 170985785 T C snp2094 6 29428022 T C
snp0149
1 103208112 C T snp1122 3 170985963 C T snp2095 6 29428249 T C
snp0150
1 103208117 C T snp1123 3 170986051 G A snp2096 6 29428481 T C
snp0151
1 103208551 C T snp1124 3 170986197 G A snp2097 6 29428718 G A
snp0152 1 103208717 G A snp1125 3 170986252 T C snp2098 6 29429007 G T
snp0153
1 103208805 G A snp1126 3 170986379 T C snp2099 6 29429030 C G
snp0154
1 103208837 A G snp1127 3 170986710 T C snp2100 6 29429433 C G
snp0155
1 103209035 T A snp1128 3 170986711 A G snp2101 6 29429793 C T
snp0156
1 103209094 T G snp1129 3 170987776 A G snp2102 6 29429858 T C
snp0157
1 103209095 A T snp1130 3 170989878 C G snp2103 6 29429959 C T
snp0158
1 103209270 G A snp1131 3 170990014 T A snp2104 6 29430137 T G
snp0159
1 103209388 C T snp1132 3 170990251 A G snp2105 6 29431721 C T
snp0160
1 103209487 T G snp1133 3 170990318 A C snp2106 6 29433675 C A
snp0161 1 103209503 G A snp1134 3 170990456 C G snp2107 6 29433942 C A
snp0162 1 103209873 T C snp1135 3 170990618 T C snp2108 6 29436120 G A
snp0163
1 103210042 A G snp1136 3 170990638 T C snp2109 6 29436289 G T
snp0164
1 103210069 A G snp1137 3 170990997 C T snp2110 6 29437288 T C
snp0165
1 103210087 A C snp1138 3 170991147 G C snp2111 6 29437484 T C
snp0166
1 103210364 A G snp1139 3 170991187 G A snp2112 6 29440111 G A
snp0167 1 103211570 A G snp1140 3 170991257 G C snp2113 6 29440208 G A
snp0168 1 103211580 A G snp1141 3 170991858 T C snp2114 6 29441398 C T
snp0169
1 103211606 G A snp1142 3 170993842 G C snp2115 6 29441721 C T
snp0170
1 103211705 A G snp1143 3 170993896 G A snp2116 6 29441829 G A
snp0171
1 103211870 G A snp1144 3 170994731 T C snp2117 6 29441838 A C
snp0172
1 103212193 A T snp1145 3 170995120 C T snp2118 6 29441958 G A
snp0173 1 103212476 T C snp1146 3 170995189 T C snp2119 6 29442010 C A
snp0174 1 103212583 G T snp1147 3 170995381 C T snp2120 6 29442074 C T
snp0175
1 103212632 G A snp1148 3 170995741 C G snp2121 6 29442285 T C
snp0176
1 103212637 T A snp1149 3 170996167 C T snp2122 6 29442863 T C
snp0177
1 103212894 G C snp1150 3 170996223 A G snp2123 6 29443161 T A
snp0178 1 103212905 A C snp1151 3 170996626 T C snp2124 6 29444449 T C
snp0179
1 103212916 C T snp1152 3 170997084 G A snp2125 6 29444655 G A
snp0180 1 103213553 A G snp1153 3 170997269 A G snp2126 6 29444766 A C
snp0181
1 103214281 A G snp1154 3 170997320 G A snp2127 6 29444924 C T
snp0182
1 103214442 C T snp1155 3 170997341 A T snp2128 6 29445117 G C
snp0183
1 103214496 A T snp1156 3 170997579 A G snp2129 6 29445363 C T
snp0184
1 103214547 C T snp1157 3 170997600 G A snp2130 6 29445738 T C
snp0185
1 103214801 T C snp1158 3 170997650 C A snp2131 6 29445995 C T
snp0186
1 103214888 A G snp1159 3 170997666 A G snp2132 6 29446065 T G
snp0187
1 103215074 A C snp1160 3 170997782 G A snp2133 6 29446149 C G
snp0188
1 103215116 G A snp1161 3 170998633 G A snp2134 6 29446218 T C
snp0189
1 103216002 A G snp1162 3 170999156 G C snp2135 6 29446264 G A
snp0190 1 103216070 G T snp1163 3 170999211 C T snp2136 6 29446299 A G
snp0191
1 103216137 A G snp1164 3 171000186 A G snp2137 6 29446542 C G
snp0192
1 103217391 C T snp1165 3 171000525 T C snp2138 6 29446744 A T
snp0193
1 103217596 T C snp1166 3 171000659 T C snp2139 6 29446973 T C
snp0194
1 103217783 G A snp1167 3 171000737 C T snp2140 6 29446977 A G
snp0195
1 103217816 G A snp1168 3 171001119 G C snp2141 6 29447113 T G
snp0196
1 103218357 T C snp1169 3 171001288 A C snp2142 6 29447328 C T
snp0197
1 103218417 A C snp1170 3 171001865 G A snp2143 6 29447332 A G
snp0198
1 103218717 C G snp1171 3 171002596 T C snp2144 6 29447473 T C
snp0199
1 103218989 C A snp1172 3 171002831 C T snp2145 6 29447763 T A
snp0200 1 103219168 C T snp1173 3 171003994 T C snp2146 6 29448412 T C
snp0201
1 103219845 T C snp1174 3 171005329 A G snp2147 6 29448436 C A
snp0202 1 103220305 A G snp1175 3 171006447 C T snp2148 6 29448809 C A
snp0203
1 103220317 T G snp1176 3 171006776 G T snp2149 6 29449240 G A
snp0204 1 103220498 C T snp1177 3 171006790 G A snp2150 6 29449424 T C
snp0205
1 103220504 C A snp1178 3 171006937 A G snp2151 6 29449631 T C
snp0206
1 103220672 C G snp1179 3 171006966 C T snp2152 6 29449902 A G
snp0207
1 103220773 C T snp1180 3 171007683 G A snp2153 6 29450091 T C
snp0208
1 103220987 A G snp1181 3 171007849 A G snp2154 6 29450172 C T
snp0209
1 103221026 G T snp1182 3 171008018 A C snp2155 6 29450429 C T
snp0210
1 103221076 T C snp1183 3 171008090 C T snp2156 6 29450432 C G
snp0211
1 103221217 A T snp1184 3 171008188 T C snp2157 6 29451744 G A
snp0212 1 103221326 G A snp1185 3 171008210 C G snp2158 6 29452159 G A
snp0213 1 103221336 T A snp1186 3 171008253 C A snp2159 6 29452368 C T
snp0214
1 103221340 C T snp1187 3 171008272 C T snp2160 6 29452388 T C
snp0215
1 103221345 C G snp1188 3 171008530 T A snp2161 6 29452509 T C
snp0216
1 103221419 G C snp1189 3 171009007 C A snp2162 6 29452769 C T
snp0217
1 103221583 A T snp1190 3 171009138 G A snp2163 6 29455714 C T
snp0218
1 103221593 A G snp1191 3 171009381 C T snp2164 6 29456241 G A
snp0219 1 103221601 G A snp1192 3 171009450 C G snp2165 6 29456344 C T
snp0220
1 103221781 G A snp1193 3 171009499 G C snp2166 6 29458458 G C
snp0221
1 103221793 C T snp1194 3 171009557 A G snp2167 6 29458583 A T
snp0222
1 103222046 A G snp1195 3 171009691 T C snp2168 6 29458899 G A
snp0223 1 103222093 A C snp1196 3 171009773 C T snp2169 6 29459101 G A
snp0224 1 103222194 G A snp1197 3 171009845 G A snp2170 6 29460079 A G
snp0225
1 103222252 C T snp1198 3 171009927 A G snp2171 6 29460120 T C
snp0226
1 103222426 C T snp1199 3 171009978 A G snp2172 6 29460887 G A
snp0227
1 103222551 G A snp1200 3 171010007 A G snp2173 6 29460948 C T
snp0228
1 103222895 C T snp1201 3 171010127 G T snp2174 6 29461044 A G
snp0229
1 103222961 A G snp1202 3 171010175 G C snp2175 6 29461164 T C
snp0230
1 103223337 C T snp1203 3 171010356 C T snp2176 6 29461739 T G
snp0231 1 103224211 A C snp1204 3 171010782 G A snp2177 6 29462224 T C
snp0232
1 103224580 G A snp1205 3 171011043 T C snp2178 6 29462567 T C
snp0233
1 103224628 G C snp1206 3 171011118 T C snp2179 6 29462579 C T
snp0234
1 103224941 T A snp1207 3 171011121 C T snp2180 6 29462634 G A
snp0235 1 103225036 G A snp1208 3 171011733 C T snp2181 6 29462753 C T
snp0236
1 103225063 A T snp1209 3 171012001 C T snp2182 6 29462931 T C
snp0237
1 103225081 G A snp1210 3 171012083 C T snp2183 6 29462992 A G
snp0238
1 103225390 G A snp1211 3 171012184 G A snp2184 6 29463053 T C
snp0239
1 103225463 G T snp1212 3 171012185 C T snp2185 6 29463116 G T
snp0240
1 103225654 A C snp1213 3 171012237 A G snp2186 6 29463318 G A
snp0241
1 103225736 C T snp1214 3 171012307 T C snp2187 6 29463386 G A
snp0242
1 103225791 G A snp1215 3 171012539 T G snp2188 6 29463452 A G
snp0243
1 103225821 A G snp1216 3 171012603 A T snp2189 6 29463473 C T
snp0244
1 103225859 C G snp1217 3 171012644 T C snp2190 6 29463633 G C
snp0245
1 103225881 A G snp1218 3 171012872 A G snp2191 6 29463837 C A
snp0246 1 103226060 A C snp1219 3 171012938 G A snp2192 6 29463950 T C
snp0247
1 103226089 C G snp1220 3 171012983 T C snp2193 6 29463996 C A
snp0248
1 103226370 A G snp1221 3 171013078 C A snp2194 6 29464018 A G
snp0249
1 103226422 T C snp1222 3 171013215 T G snp2195 6 29464096 T C
snp0250
1 103226489 G A snp1223 3 171013496 G A snp2196 6 29464250 C T
snp0251
1 103227276 C T snp1224 3 171013585 C G snp2197 6 29464315 G A
snp0252 1 103227379 T C snp1225 3 171013678 C T snp2198 6 29464344 G A
snp0253
1 103227710 C T snp1226 3 171013910 C T snp2199 6 29464407 T C
snp0254
1 103227725 T C snp1227 3 171014314 T C snp2200 6 29464781 G A
snp0255
1 103228007 A G snp1228 3 171014702 T C snp2201 6 29464811 T G
snp0256
1 103228031 A G snp1229 3 171014935 C T snp2202 6 29464903 A C
snp0257
1 103228394 C T snp1230 3 171015122 C A snp2203 6 29464930 G A
snp0258
1 103228711 G A snp1231 3 171015261 T C snp2204 6 29465025 G A
snp0259 1 103228717 G A snp1232 3 171016995 C T snp2205 6 29465327 C G
snp0260
1 103228887 T C snp1233 3 171017025 A G snp2206 6 29466328 C G
snp0261
1 103228981 A G snp1234 3 171017091 A C snp2207 6 29466608 G A
snp0262 1 103229021 A G snp1235 3 171017151 G A snp2208 6 29466654 T C
snp0263
1 103229185 G T snp1236 3 171017201 T C snp2209 6 29466859 G A
snp0264
1 103229195 T C snp1237 3 171017227 A G snp2210 6 29467015 A C
snp0265
1 103229275 G A snp1238 3 171017475 C T snp2211 6 29467145 G A
snp0266
1 103229313 G T snp1239 3 171017487 C G snp2212 6 29467213 T C
snp0267
1 103230319 A G snp1240 3 171017569 G A snp2213 6 29467305 T C
snp0268
1 103230382 A G snp1241 3 171017725 T C snp2214 6 29468471 C T
snp0269
1 103230523 G A snp1242 3 171017792 T C snp2215 6 29468485 A C
snp0270
1 103230691 C A snp1243 3 171017820 A G snp2216 6 29468580 C T
snp0271
1 103230699 C A snp1244 3 171017822 C G snp2217 6 29468645 C T
snp0272
1 103230908 A G snp1245 3 171017825 G C snp2218 6 29468825 C T
snp0273
1 103230914 A G snp1246 3 171018222 C A snp2219 6 29468862 G C
snp0274
1 103231746 A C snp1247 3 171018236 T G snp2220 6 29469025 A G
snp0275
1 103231906 C A snp1248 3 171018519 C T snp2221 6 29469395 T C
snp0276
1 103232764 C T snp1249 3 171018592 A G snp2222 6 29469464 T C
snp0277
1 103232774 C A snp1250 3 171018915 G A snp2223 6 29469581 T C
snp0278
1 103232992 T C snp1251 3 171019035 G T snp2224 6 29470196 G T
snp0279
1 103233043 G A snp1252 3 171019075 C T snp2225 6 29470204 C T
snp0280
1 103233069 A G snp1253 3 171019180 G A snp2226 6 29470301 A G
snp0281
1 103233208 G A snp1254 3 171019229 C T snp2227 6 29470323 T G
snp0282
1 103233786 T C snp1255 3 171020176 T C snp2228 6 29470569 C T
snp0283
1 103233799 C T snp1256 3 171020189 C T snp2229 6 29470794 C T
snp0284
1 103234094 G A snp1257 3 171020262 G C snp2230 6 29470845 T C
snp0285
1 103234334 G A snp1258 3 171020313 C T snp2231 6 29471182 G C
snp0286
1 103234339 G T snp1259 3 171020395 C G snp2232 6 29471608 T C
snp0287
1 103234512 T C snp1260 3 171020559 C A snp2233 6 29472008 G A
snp0288
1 103234674 G A snp1261 3 171020860 G A snp2234 6 29472196 C T
snp0289 1 103234739 C T snp1262 3 171021242 G A snp2235 6 29472244 C T
snp0290
1 103234834 G C snp1263 3 171021360 T C snp2236 6 29472344 C T
snp0291
1 103234912 A G snp1264 3 171021393 A G snp2237 6 29472402 A C
snp0292
1 103234991 A G snp1265 3 171021598 T G snp2238 6 29472450 C T
snp0293
1 103235168 T C snp1266 3 171021604 T C snp2239 6 29472527 A G
snp0294
1 103235226 C T snp1267 3 171022595 G T snp2240 6 29473444 A G
snp0295
1 103235269 G A snp1268 3 171022660 G A snp2241 6 29473733 C T
snp0296
1 103235389 G T snp1269 3 171024026 C T snp2242 6 29473810 C A
snp0297 1 103235391 A G snp1270 3 171028311 T G snp2243 6 29474437 A G
snp0298
1 103235409 C T snp1271 3 171028953 G A snp2244 6 29474509 T C
snp0299
1 103235440 T C snp1272 3 171029302 T C snp2245 6 29476213 T G
snp0300
1 103235487 G A snp1273 3 171029367 G A snp2246 6 29477020 C T
snp0301
1 103235873 C T snp1274 3 171029487 T G snp2247 6 29477062 G A
snp0302
1 103236075 T C snp1275 3 171029701 T A snp2248 6 29477069 A G
snp0303
1 103236563 T G snp1276 3 171033874 T A snp2249 6 29477113 T C
snp0304
1 103237647 G A snp1277 3 171033878 T C snp2250 6 29477676 A G
snp0305
1 103237696 A T snp1278 3 171033975 C T snp2251 6 29477728 A G
snp0306
1 103237719 G A snp1279 3 171035263 T C snp2252 6 29477768 T C
snp0307
1 103237800 A G snp1280 3 171035480 G T snp2253 6 29478123 A G
snp0308
1 103238490 A G snp1281 3 171035550 C T snp2254 6 29478565 T C
snp0309
1 103239196 T C snp1282 3 171035600 T C snp2255 6 29478570 C A
snp0310 1 103239240 T A snp1283 3 171035601 G A snp2256 6 29478596 C T
snp0311
1 103239291 G A snp1284 3 171035612 A G snp2257 6 29478682 G A
snp0312
1 103239608 T C snp1285 3 171035673 G T snp2258 6 29478749 C T
snp0313
1 103239943 G T snp1286 3 171036186 C T snp2259 6 29479077 A G
snp0314
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snp0315
1 103240950 T C snp1288 3 171037239 C T snp2261 6 29479101 G C
snp0316
1 103241131 C T snp1289 3 171037513 T C snp2262 6 29479174 C T
snp0317
1 103241180 A T snp1290 3 171038454 T C snp2263 6 29479176 C G
snp0318
1 103241237 G A snp1291 3 171038796 G A snp2264 6 29479363 C T
snp0319
1 103241580 A G snp1292 3 171040296 C T snp2265 6 29479434 A G
snp0320
1 103241594 C T snp1293 3 171040840 T A snp2266 6 29479445 G C
snp0321
1 103241643 C T snp1294 3 171040855 T C snp2267 6 29479570 C T
snp0322
1 103241885 G A snp1295 3 171041216 A G snp2268 6 29479648 A G
snp0323
1 103242056 C T snp1296 3 171041231 G A snp2269 6 29479841 C T
snp0324
1 103243102 C T snp1297 3 171041254 G C snp2270 6 29480350 C T
snp0325
1 103244863 A G snp1298 3 171041321 T C snp2271 6 29480421 A G
snp0326
1 103245142 G A snp1299 3 171041525 T C snp2272 6 29480610 G A
snp0327
1 103245312 T C snp1300 3 171041850 G A snp2273 6 29480844 A C
snp0328
1 103245511 T G snp1301 3 171043038 C T snp2274 6 29481033 T C
snp0329
1 103245528 A G snp1302 3 171043062 C T snp2275 6 29481248 G A
snp0330 1 103245603 G A snp1303 3 171043315 A G snp2276 6 29482794 A G
snp0331
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snp0332
1 103245839 G A snp1305 3 171044230 C G snp2278 6 29483039 A G
snp0333
1 103245919 T C snp1306 3 171044662 T C snp2279 6 29483531 C T
snp0334
1 103245938 A G snp1307 3 171044758 C T snp2280 6 29483814 G A
snp0335 1 103245972 C T snp1308 3 171045729 C T snp2281 6 29483862 C T
snp0336
1 103246428 C T snp1309 3 171046725 T C snp2282 6 29483939 T A
snp0337
1 103246478 T C snp1310 3 171046850 T C snp2283 6 29483949 A C
snp0338
1 103246801 A G snp1311 3 171047111 C T snp2284 6 29484857 C T
snp0339
1 103246999 A G snp1312 3 171048575 C G snp2285 6 29485017 C A
snp0340
1 103247104 T G snp1313 3 171048666 C T snp2286 6 29485200 C T
snp0341
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snp0342
1 103247390 T C snp1315 3 171049968 T C snp2288 6 29486325 C G
snp0343
1 103247409 G A snp1316 3 171050254 T A snp2289 6 29486471 C T
snp0344
1 103248296 G C snp1317 3 171050736 G A snp2290 6 29486710 C A
snp0345
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snp0346
1 103248700 T C snp1319 3 171050936 A T snp2292 6 29488066 A G
snp0347 1 103249300 G T snp1320 3 171051568 C G snp2293 6 29488071 A G
snp0348
1 103249404 G A snp1321 3 171052587 C T snp2294 6 29488085 C A
snp0349
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snp0350
1 103250048 C T snp1323 3 171053009 T G snp2296 6 29488354 A T
snp0351
1 103251283 C T snp1324 3 171053227 G A snp2297 6 29488531 G C
snp0352
1 103251950 T C snp1325 3 171053421 C T snp2298 6 29488695 C T
snp0353
1 103252017 G A snp1326 3 171053617 C T snp2299 6 29488755 A G
snp0354
1 103252351 C T snp1327 3 171054747 T C snp2300 6 29489132 G T
snp0355
1 103252845 C T snp1328 3 171055018 G A snp2301 6 29489156 T A
snp0356 1 103252929 G A snp1329 3 171055094 A G snp2302 6 29489638 C T
snp0357
1 103253440 T C snp1330 3 171055175 G A snp2303 6 29489692 C T
snp0358
1 103254227 C T snp1331 3 171055410 G T snp2304 6 29489716 T C
snp0359
1 103254934 T C snp1332 3 171055522 C T snp2305 6 29489806 C A
snp0360
1 103255864 G A snp1333 3 171056006 T G snp2306 6 29489958 C T
snp0361
1 103256592 C A snp1334 3 171056300 G T snp2307 6 29490143 G T
snp0362
1 103256647 T G snp1335 3 171056561 A G snp2308 6 29490985 T C
snp0363
1 103257947 T C snp1336 3 171057835 A T snp2309 6 29491419 T C
snp0364
1 103258121 G A snp1337 3 171058241 G A snp2310 6 29492012 C T
snp0365
1 103259128 G A snp1338 3 171059321 A G snp2311 6 29492438 A G
snp0366
1 103259206 T C snp1339 3 171059612 C G snp2312 6 29493059 G A
snp0367 1 103259241 C T snp1340 3 171060048 T C snp2313 6 29493130 G A
snp0368 1 103259507 C T snp1341 3 171060531 A G snp2314 6 29493191 G A
snp0369 1 103259567 G C snp1342 3 171061346 A G snp2315 6 29493697 C A
snp0370 1 103259826 T C snp1343 3 171062690 G A snp2316 6 29493920 T C
snp0371
1 103259880 C T snp1344 3 171062763 A G snp2317 6 29493934 A G
snp0372
1 103260023 C T snp1345 3 171062854 A T snp2318 6 29494304 G C
snp0373
1 103260120 G A snp1346 3 171062862 T C snp2319 6 29494335 C T
snp0374
1 103260135 C T snp1347 3 171063085 G C snp2320 6 29494632 C T
snp0375
1 103260255 A G snp1348 3 171063100 G T snp2321 6 29494700 A G
snp0376
1 103260376 C T snp1349 3 171063219 T C snp2322 6 29494715 G A
snp0377 1 103260611 A G snp1350 3 171063220 G A snp2323 6 29494829 G C
snp0378
1 103260637 A G snp1351 3 171063460 T G snp2324 6 29494850 C T
snp0379
1 103260819 G A snp1352 3 171063822 C T snp2325 6 29495201 G A
snp0380 1 103261012 A G snp1353 3 171063931 T C snp2326 6 29495539 G C
snp0381
1 103261022 A G snp1354 3 171063969 C T snp2327 6 29495645 A G
snp0382
1 103261206 A G snp1355 3 171064071 T C snp2328 6 29495829 T C
snp0383
1 103261212 C T snp1356 3 171064555 G A snp2329 6 29495955 A G
snp0384
1 103261386 A C snp1357 3 171064765 C T snp2330 6 29496245 T C
snp0385
1 103261620 T C snp1358 3 171064788 T G snp2331 6 29496476 G A
snp0386
1 103262737 G T snp1359 3 171065175 A G snp2332 6 29496489 A G
snp0387
1 103262817 A G snp1360 3 171065255 T C snp2333 6 29496552 C T
snp0388
1 103262893 G A snp1361 3 171065509 A G snp2334 6 29496609 C T
snp0389
1 103262997 A G snp1362 3 171065520 T C snp2335 6 29496737 G T
snp0390
1 103263024 G A snp1363 3 171065917 G A snp2336 6 29496778 G A
snp0391 1 103263274 T C snp1364 3 171066698 T C snp2337 6 29496931 T C
snp0392
1 103263308 A G snp1365 3 171070799 T G snp2338 6 29496983 T C
snp0393
1 103263760 T C snp1366 3 171071541 G A snp2339 6 29497243 A G
snp0394
1 103263867 G C snp1367 3 171072217 C T snp2340 6 29497662 A G
snp0395
1 103263939 G C snp1368 3 171072218 A G snp2341 6 29497775 T C
snp0396
1 103263965 G A snp1369 3 171072881 G T snp2342 6 29497795 A G
snp0397
1 103264291 G C snp1370 3 171073503 C T snp2343 6 29497869 G A
snp0398 1 103264736 G A snp1371 6 29150079 A G snp2344 6 29497971 T C
snp0399
1 103264900 T A snp1372 6 29150222 A T snp2345 6 29498492 T C
snp0400
1 103265066 C T snp1373 6 29150391 G A snp2346 6 29498550 G C
snp0401
1 103265110 C A snp1374 6 29150955 G C snp2347 6 29499196 C T
snp0402
1 103266679 C T snp1375 6 29150972 T G snp2348 6 29499211 A G
snp0403
1 103266920 T C snp1376 6 29151378 T C snp2349 6 29499748 G A
snp0404
1 103267123 T G snp1377 6 29151815 C T snp2350 6 29499913 T C
snp0405 1 103267169 T C snp1378 6 29151887 G A snp2351 6 29500487 A G
snp0406
1 103267242 T C snp1379 6 29152022 A G snp2352 6 29500557 G A
snp0407
1 103267373 G T snp1380 6 29152349 T G snp2353 6 29500634 C T
snp0408
1 103267509 A T snp1381 6 29152370 G A snp2354 6 29500646 C T
snp0409
1 103268606 C A snp1382 6 29152402 T C snp2355 6 29500698 A G
snp0410
1 103268614 G A snp1383 6 29152607 G A snp2356 6 29500724 C G
snp0411
1 103268743 C T snp1384 6 29152656 G A snp2357 6 29500831 G A
snp0412 1 103269074 C T snp1385 6 29152670 G C snp2358 6 29500868 A C
snp0413
1 103269198 T C snp1386 6 29152929 A G snp2359 6 29500939 G A
snp0414 1 103269286 C T snp1387 6 29153067 T C snp2360 6 29501091 C G
snp0415
1 103269945 G A snp1388 6 29153150 T A snp2361 6 29501232 A C
snp0416
1 103269991 A G snp1389 6 29153282 G A snp2362 6 29501343 T C
snp0417
1 103270022 C T snp1390 6 29153445 G A snp2363 6 29502018 G A
snp0418
1 103270023 T G snp1391 6 29153698 A G snp2364 6 29502467 C T
snp0419
1 103271051 C T snp1392 6 29153978 A G snp2365 6 29502563 T C
snp0420
1 103271214 T C snp1393 6 29154443 A T snp2366 6 29502703 A G
snp0421
1 103271261 A G snp1394 6 29154495 A G snp2367 6 29502747 G A
snp0422 1 103271312 T C snp1395 6 29154775 C T snp2368 6 29503342 C T
snp0423
1 103271452 A G snp1396 6 29155190 C G snp2369 6 29503428 T C
snp0424
1 103271557 T G snp1397 6 29155338 G A snp2370 6 29503536 C A
snp0425 1 103271636 T C snp1398 6 29155475 G A snp2371 6 29503617 G T
snp0426
1 103271792 T C snp1399 6 29155751 G C snp2372 6 29504122 G A
snp0427
1 103271901 T C snp1400 6 29157268 A G snp2373 6 29504134 G A
snp0428 1 103271946 C G snp1401 6 29157869 T C snp2374 6 29504167 G A
snp0429
1 103271947 T C snp1402 6 29157922 T G snp2375 6 29504432 T C
snp0430
1 103272060 G A snp1403 6 29158278 C G snp2376 6 29504442 T C
snp0431
1 103272165 A G snp1404 6 29159558 A T snp2377 6 29504596 G A
snp0432
1 103272279 A G snp1405 6 29160182 A G snp2378 6 29504647 T C
snp0433
1 103272327 T G snp1406 6 29162092 A G snp2379 6 29505018 C A
snp0434
1 103272426 C T snp1407 6 29162702 A G snp2380 6 29505708 C T
snp0435
1 103272446 A C snp1408 6 29163037 C T snp2381 6 29506240 G A
snp0436
1 103272756 C T snp1409 6 29163187 C T snp2382 6 29507172 T A
snp0437
1 103273074 A G snp1410 6 29164741 C A snp2383 6 29507214 T A
snp0438
1 103273130 A T snp1411 6 29164754 A G snp2384 6 29507571 C T
snp0439
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snp0440
1 103273372 C T snp1413 6 29168759 C T snp2386 6 29507840 A G
snp0441
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snp0442
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snp0443
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snp0444
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snp0445
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snp0446
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snp0447
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snp0448
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snp0449
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snp0450
1 103274836 T C snp1423 6 29170956 G A snp2396 6 29509776 A G
snp0451
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snp0452
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snp0453
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snp0454
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snp0455
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snp0456
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snp0457
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snp0458 1 103278595 A G snp1431 6 29171455 G T snp2404 6 29513936 T A
snp0459
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snp0460
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snp0461
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snp0462
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snp0463 1 103279452 A G snp1436 6 29173340 T C snp2409 6 29514149 A T
snp0464
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snp0465
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snp0466
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snp0467
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snp0468
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snp0469
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snp0470
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snp0471
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snp0472
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snp0473
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snp0474
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snp0475
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snp0476
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snp0477
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snp0478
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snp0479
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snp0480
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snp0481
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snp0482
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snp0483 1 103289027 G T snp1456 6 29177479 G A snp2429 6 29517686 A G
snp0484
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snp0485
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snp0486
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snp0487
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snp0488
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snp0489
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snp0490
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snp0491
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snp0492
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snp0493
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snp0494 1 103290743 T G snp1467 6 29178574 G A snp2440 6 29518228 T C
snp0495
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snp0496
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snp0497
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snp0498
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snp0499
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snp0500
1 103291521 T C snp1473 6 29179306 C T snp2446 6 29519060 T C
snp0501
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snp0502
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snp0503
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snp0504
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snp0505
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snp0506
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snp0507
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snp0508
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snp0509
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snp0510 1 103292506 A G snp1483 6 29181225 G C snp2456 6 29522020 G A
snp0511 1 103293687 A G snp1484 6 29181362 A G snp2457 6 29522175 C T
snp0512
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snp0513
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snp0514
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snp0515 1 103295556 C T snp1488 6 29182419 T C snp2461 6 29523359 G T
snp0516
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snp0517
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snp0518
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snp0519
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snp0520
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snp0521 1 103300773 G A snp1494 6 29184981 A T snp2467 6 29523648 G A
snp0522
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snp0523
1 103301333 T C snp1496 6 29185331 T A snp2469 6 29523895 A G
snp0524
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snp0525
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snp0526
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snp0527
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snp0528
1 103308472 C A snp1501 6 29188735 G C snp2474 6 29525032 C T
snp0529
1 103308553 C T snp1502 6 29189320 G A snp2475 6 29525299 T G
snp0530
1 103308668 C T snp1503 6 29189556 G A snp2476 6 29525410 C T
snp0531
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snp0532
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snp0533
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snp0534
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snp0535
1 103309834 T C snp1508 6 29190549 C T snp2481 6 29526141 C G
snp0536
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snp0537
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snp0538
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snp0539
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snp0540 1 103312874 G A snp1513 6 29191223 G A snp2486 6 29526928 T C
snp0541
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snp0542
1 103314232 C T snp1515 6 29191459 T A snp2488 6 29528737 T A
snp0543 1 103314273 G C snp1516 6 29191605 G A snp2489 6 29528773 T C
snp0544
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snp0545
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snp0546
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snp0547
1 103314488 T C snp1520 6 29191899 T C snp2493 6 29529336 G A
snp0548 1 103314578 T C snp1521 6 29191911 C T snp2494 6 29529403 C T
snp0549
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snp0550
1 103314764 C T snp1523 6 29192749 G A snp2496 6 29529553 A C
snp0551
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snp0552
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snp0553
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snp0554 1 103315134 G A snp1527 6 29193280 T C snp2500 6 29529831 A G
snp0555
1 103315287 G A snp1528 6 29193564 C T snp2501 6 29530417 G T
snp0556
1 103315587 C T snp1529 6 29194250 A T snp2502 6 29530432 A G
snp0557
1 103315862 T C snp1530 6 29194422 G T snp2503 6 29530465 A C
snp0558
1 103316362 G A snp1531 6 29194486 C T snp2504 6 29530612 C T
snp0559
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snp0560
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snp0561
1 103317279 G A snp1534 6 29194970 A G snp2507 6 29532283 G A
snp0562 1 103317280 G A snp1535 6 29195063 A G snp2508 6 29532338 A T
snp0563
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snp0564
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snp0565
1 103318425 A T snp1538 6 29195409 G A snp2511 6 29532437 G A
snp0566 1 103318628 C T snp1539 6 29195784 A G snp2512 6 29532717 C T
snp0567
1 103318665 A G snp1540 6 29196953 G A snp2513 6 29532859 G C
snp0568
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snp0569
1 103318724 C G snp1542 6 29197799 A C snp2515 6 29532893 A C
snp0570
1 103318853 G A snp1543 6 29197846 A G snp2516 6 29532930 A C
snp0571
1 103318891 C T snp1544 6 29197965 T C snp2517 6 29533047 A G
snp0572
1 103318894 G C snp1545 6 29198434 G A snp2518 6 29533381 A G
snp0573
1 103318955 G A snp1546 6 29198518 G T snp2519 6 29533706 T C
snp0574
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snp0575
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snp0576
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snp0577
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snp0578
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snp0579 1 103320148 G C snp1552 6 29199595 C T snp2525 6 29534412 G A
snp0580 1 103320201 T G snp1553 6 29202542 T G snp2526 6 29534625 G A
snp0581
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snp0582
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snp0583
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snp0584
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snp0585
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snp0586
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snp0587
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snp0588
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snp0589
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snp0590
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snp0591
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snp0592
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snp0593 1 103323522 T C snp1566 6 29204464 G A snp2539 6 29536031 C T
snp0594
1 103323650 C T snp1567 6 29204665 G A snp2540 6 29536154 G T
snp0595
1 103323688 C T snp1568 6 29204725 C T snp2541 6 29536293 A T
snp0596
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snp0597
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snp0598
1 103325113 G C snp1571 6 29205001 G A snp2544 6 29536517 A G
snp0599
1 103325477 A T snp1572 6 29205192 A G snp2545 6 29536600 C T
snp0600
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snp0601
1 103326094 C T snp1574 6 29205286 G A snp2547 6 29536892 A G
snp0602
1 103326186 G A snp1575 6 29205298 A C snp2548 6 29537078 C T
snp0603
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snp0604
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snp0605
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snp0606
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snp0607
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snp0608
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snp0609
1 103328834 C T snp1582 6 29209406 C T snp2555 6 29538157 T C
snp0610
1 103329127 T C snp1583 6 29210118 C T snp2556 6 29538236 A G
snp0611
1 103329185 A C snp1584 6 29210944 T C snp2557 6 29538782 C T
snp0612
1 103330148 C A snp1585 6 29211106 T C snp2558 6 29538934 C T
snp0613
1 103330343 T C snp1586 6 29211175 T C snp2559 6 29539171 C T
snp0614
1 103330555 C T snp1587 6 29211214 C T snp2560 6 29539177 G A
snp0615 1 103331096 G A snp1588 6 29211423 A G snp2561 6 29539475 C T
snp0616
1 103331713 C T snp1589 6 29211858 G A snp2562 6 29539709 G A
snp0617 1 103332288 G A snp1590 6 29212175 G A snp2563 6 29539825 G A
snp0618 1 103332395 A G snp1591 6 29212358 T C snp2564 6 29540028 T C
snp0619
1 103332493 T A snp1592 6 29212620 G A snp2565 6 29540030 C T
snp0620
1 103333725 C T snp1593 6 29212664 G A snp2566 6 29540045 A G
snp0621
1 103334538 A G snp1594 6 29212717 A C snp2567 6 29540106 C T
snp0622
1 103336226 G A snp1595 6 29212802 G A snp2568 6 29540286 C G
snp0623
1 103336261 A G snp1596 6 29213581 T G snp2569 6 29540298 A G
snp0624
1 103336319 A C snp1597 6 29213611 C T snp2570 6 29540322 T C
snp0625
1 103336941 G A snp1598 6 29214307 G T snp2571 6 29540390 C T
snp0626
1 103338123 T G snp1599 6 29214317 G A snp2572 6 29540457 C T
snp0627
1 103338581 G A snp1600 6 29214328 G A snp2573 6 29540504 T G
snp0628
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snp0629
1 103339516 T G snp1602 6 29214408 A G snp2575 6 29540562 T G
snp0630
1 103339928 C A snp1603 6 29215808 C T snp2576 6 29540614 T C
snp0631
1 103340104 T C snp1604 6 29216951 A G snp2577 6 29540710 T C
snp0632
1 103340375 G A snp1605 6 29216962 C G snp2578 6 29540781 C T
snp0633
1 103340549 G A snp1606 6 29217151 G A snp2579 6 29540819 C T
snp0634
1 103340778 G A snp1607 6 29217401 G A snp2580 6 29541232 C T
snp0635
1 103340830 C T snp1608 6 29219240 G A snp2581 6 29541277 T C
snp0636
1 103340831 G A snp1609 6 29219533 G A snp2582 6 29541319 C T
snp0637 1 103341086 G A snp1610 6 29219595 T C snp2583 6 29541320 G T
snp0638
1 103341553 T C snp1611 6 29220054 A G snp2584 6 29541501 T C
snp0639
1 103341612 A G snp1612 6 29220059 A T snp2585 6 29541595 G A
snp0640
1 103341662 T G snp1613 6 29220921 C T snp2586 6 29541650 T C
snp0641
1 103341895 A C snp1614 6 29221148 G A snp2587 6 29541762 A G
snp0642
1 103342002 G A snp1615 6 29221448 T C snp2588 6 29542672 G A
snp0643
1 103342058 T C snp1616 6 29222079 A C snp2589 6 29542985 G A
snp0644
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snp0645
1 103342235 C T snp1618 6 29222368 G A snp2591 6 29543057 C T
snp0646
1 103342692 T C snp1619 6 29222692 T C snp2592 6 29543551 A G
snp0647
1 103345543 T A snp1620 6 29222738 C A snp2593 6 29543571 A G
snp0648
1 103345729 A T snp1621 6 29224348 A G snp2594 6 29543696 G A
snp0649
1 103345774 T G snp1622 6 29224583 G A snp2595 6 29543697 C T
snp0650
1 103346318 T C snp1623 6 29224704 A C snp2596 6 29544253 G C
snp0651
1 103346388 T A snp1624 6 29224729 G A snp2597 6 29544585 C T
snp0652
1 103346445 C A snp1625 6 29224764 A T snp2598 6 29544589 T C
snp0653
1 103346458 A T snp1626 6 29225442 T C snp2599 6 29544858 C A
snp0654
1 103346640 T A snp1627 6 29225472 G A snp2600 6 29544942 A G
snp0655
1 103346764 G A snp1628 6 29225488 T A snp2601 6 29545021 A C
snp0656
1 103346909 T C snp1629 6 29225490 T G snp2602 6 29545269 T C
snp0657
1 103346910 G A snp1630 6 29225497 T A snp2603 6 29545363 C G
snp0658
1 103347558 G A snp1631 6 29226172 A G snp2604 6 29545452 T C
snp0659
1 103347828 C T snp1632 6 29226293 G A snp2605 6 29545549 A G
snp0660
1 103347945 T G snp1633 6 29226396 A G snp2606 6 29545688 G C
snp0661
1 103348124 T A snp1634 6 29226422 G A snp2607 6 29545955 A G
snp0662
1 103348366 C T snp1635 6 29226920 G A snp2608 6 29546133 T A
snp0663
1 103348442 T C snp1636 6 29227160 C A snp2609 6 29546244 T G
snp0664
1 103348544 G A snp1637 6 29227882 G C snp2610 6 29546275 C T
snp0665
1 103348613 A T snp1638 6 29227916 C T snp2611 6 29546288 A C
snp0666
1 103348781 T G snp1639 6 29227971 A G snp2612 6 29546339 C T
snp0667
1 103348879 A C snp1640 6 29228343 T A snp2613 6 29546355 C T
snp0668
1 103349003 G A snp1641 6 29228634 G A snp2614 6 29546506 C A
snp0669
1 103349046 C T snp1642 6 29228732 A G snp2615 6 29546628 A T
snp0670
1 103349118 T C snp1643 6 29228794 A G snp2616 6 29546649 T C
snp0671
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snp0672
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snp0673
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snp0674
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snp0675
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snp0676
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snp0677
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snp0678
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snp0679
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snp0680
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snp0681
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snp0682
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snp0683
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snp0684
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snp0685
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snp0686
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snp0687
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snp0688
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snp0689
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snp0690
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snp0691
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snp0692
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snp0693
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snp0694
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snp0695 2 7310563 C T snp1668 6 29232813 C T snp2641 6 29550659 T C
snp0696
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snp0697
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snp0698
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snp0699
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snp0700
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snp0701
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snp0702
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snp0703
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snp0704
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snp0705
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snp0706
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snp0707
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snp0708
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snp0710
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snp0711
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snp0712
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snp0713
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snp0714
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snp0715
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snp0716
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snp0717
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snp0718
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snp0719
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snp0720
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snp0721
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snp0722
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snp0723
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snp0724
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snp0725
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snp0727
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snp0728
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snp0729
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snp0730
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snp0731
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snp0732
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snp0733
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snp0734
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snp0735
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snp0736
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snp0737
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snp0738
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snp0739
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snp0740
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snp0741
2 7323232 C T snp1714 6 29246155 T C snp2687 6 29567301 T A
snp0742 2 7323333 C G snp1715 6 29246394 T C snp2688 6 29567558 C T
snp0743
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snp0744
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snp0745
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snp0746
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snp0747
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snp0748
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snp0749
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snp0750
2 7324303 A T snp1723 6 29247673 T C snp2696 6 29569092 T G
snp0751
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snp0752
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snp0754
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snp0755
2 7326603 T C snp1728 6 29249133 A C snp2701 6 29570867 C A
snp0756
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snp0757
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snp0758
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snp0759
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snp0760
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snp0761
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snp0762
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snp0763
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snp0764
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snp0765
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snp0766
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snp0767
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snp0768
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snp0769
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snp0770
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snp0771
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snp0772
2 7333522 C T snp1745 6 29252066 T C snp2718 6 29573647 T G
snp0773
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snp0774
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snp0775
2 7341188 C T snp1748 6 29253467 T C snp2721 6 29574130 C T
snp0776
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snp0777
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snp0778
2 7346601 T C snp1751 6 29254279 C T snp2724 6 29574615 C T
snp0779
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snp0780
2 7347395 C T snp1753 6 29254693 C A snp2726 6 29575250 C T
snp0781
2 7347482 C A snp1754 6 29254792 A G snp2727 6 29575357 C A
snp0782
2 7348222 G A snp1755 6 29254994 C T snp2728 6 29575892 C T
snp0783
2 7348573 C T snp1756 6 29255069 T C snp2729 6 29576049 C T
snp0784
2 7349365 T C snp1757 6 29255087 T C snp2730 6 29576064 C T
snp0785
3 170850126 A G snp1758 6 29255147 C T snp2731 6 29576267 T C
snp0786
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snp0787
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snp0788 3 170851005 T C snp1761 6 29255505 G A snp2734 6 29576654 A G
snp0789
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snp0790
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snp0791
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snp0792
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snp0793 3 170854424 C A snp1766 6 29256453 C T snp2739 6 29577561 T C
snp0794
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snp0795
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snp0796 3 170861189 A G snp1769 6 29257047 T A snp2742 6 29578008 T C
snp0797
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snp0798
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snp0799
3 170865874 G A snp1772 6 29257240 G A snp2745 6 29578139 T C
snp0800
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snp0801
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snp0802
3 170878286 T C snp1775 6 29258329 T C snp2748 6 29586059 G C
snp0803
3 170879109 T C snp1776 6 29258334 G A snp2749 6 29586230 T C
snp0804
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snp0805
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snp0806
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snp0807
3 170879451 A C snp1780 6 29260183 T C snp2753 6 29586579 G A
snp0808 3 170879557 T C snp1781 6 29260215 T C snp2754 6 29586595 C T
snp0809
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snp0810
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snp0811 3 170879875 G A snp1784 6 29260309 C T snp2757 6 29586893 C T
snp0812
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snp0813
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snp0814
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snp0815
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snp0816
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snp0817
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snp0818
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snp0819
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snp0820
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snp0821
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snp0822
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snp0823
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snp0824
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snp0825
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snp0826 3 170883046 G A snp1799 6 29262175 A G snp2772 6 29589300 C A
snp0827
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snp0828 3 170883489 G A snp1801 6 29262405 T C snp2774 6 29589473 A G
snp0829
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snp0830
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snp0831
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snp0832
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snp0833
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snp0834
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snp0835
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snp0836
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snp0837
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snp0838
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snp0839
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snp0840
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snp0841
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snp0842
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snp0843
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snp0844
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snp0845
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snp0846
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snp0847
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snp0848
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snp0849
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snp0850
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snp0851
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snp0852
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snp0853
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snp0854
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snp0855
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snp0856
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snp0857 3 170894263 T C snp1830 6 29265986 G A snp2803 6 29593734 G T
snp0858
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snp0859
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snp0860
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snp0861
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snp0862
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snp0863
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snp0864
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snp0865
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snp0866 3 170896736 A T snp1839 6 29266873 T C snp2812 6 29594825 G A
snp0867
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snp0868 3 170896832 G A snp1841 6 29267024 T C snp2814 6 29595155 C A
snp0869 3 170896844 G C snp1842 6 29267077 G A snp2815 6 29595204 C G
snp0870
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snp0871
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snp0872
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snp0873
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snp0874
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snp0875
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snp0876
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snp0877
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snp0878
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snp0879
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snp0880
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snp0881
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snp0882
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snp0883
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snp0884
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snp0885
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snp0886
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snp0887
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snp0888
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snp0889
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snp0890
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snp0891
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snp0892
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snp0893
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snp0894
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snp0895
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snp0896
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snp0897
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snp0898
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snp0899
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snp0900
3 170913889 A C snp1873 6 29273243 G A snp2846 6 29610212 G T
snp0901
3 170914165 A G snp1874 6 29273306 T C snp2847 6 29610443 A G
snp0902
3 170914707 G C snp1875 6 29273462 T C snp2848 6 29610590 T C
snp0903
3 170916275 G A snp1876 6 29273730 G A snp2849 6 29610888 T C
snp0904
3 170917162 C T snp1877 6 29273887 C T snp2850 6 29610955 G C
snp0905
3 170917572 T C snp1878 6 29273934 A G snp2851 6 29610965 C A
snp0906
3 170917660 T C snp1879 6 29273949 G A snp2852 6 29611068 C T
snp0907
3 170917836 C T snp1880 6 29274422 T C snp2853 6 29611193 G A
snp0908
3 170917928 C T snp1881 6 29278033 T C snp2854 6 29611247 C G
snp0909
3 170918566 T G snp1882 6 29278511 A G snp2855 6 29611263 T C
snp0910
3 170918904 A T snp1883 6 29278559 C T snp2856 6 29611570 C T
snp0911
3 170919791 C T snp1884 6 29278936 G T snp2857 6 29611571 G A
snp0912
3 170920645 T C snp1885 6 29279367 C T snp2858 6 29611676 A G
snp0913
3 170921333 T G snp1886 6 29279443 G T snp2859 6 29611728 C T
snp0914
3 170921634 T C snp1887 6 29279457 G A snp2860 6 29611748 C T
snp0915
3 170921763 G A snp1888 6 29279780 C T snp2861 6 29611997 A G
snp0916
3 170921810 G A snp1889 6 29279905 C T snp2862 6 29612118 A T
snp0917
3 170922613 A G snp1890 6 29279906 G A snp2863 6 29612547 A T
snp0918
3 170922715 G T snp1891 6 29279977 A G snp2864 6 29612609 T C
snp0919
3 170923157 G T snp1892 6 29280072 T G snp2865 6 29612859 C T
snp0920
3 170923430 C A snp1893 6 29280108 G A snp2866 6 29613099 T C
snp0921
3 170923750 A T snp1894 6 29280753 A G snp2867 6 29613463 A G
snp0922
3 170924149 C T snp1895 6 29280795 G A snp2868 6 29615667 T A
snp0923 3 170924186 G A snp1896 6 29280957 T A snp2869 6 29616109 T C
snp0924
3 170924262 A G snp1897 6 29281078 C A snp2870 6 29616633 G A
snp0925
3 170924484 A T snp1898 6 29281079 T G snp2871 6 29616680 T C
snp0926
3 170924592 T C snp1899 6 29281216 A G snp2872 6 29616827 T C
Figure DEST_PATH_IMAGE006
Figure DEST_PATH_IMAGE008
Wherein, the reproductive performance comprises a lambing rate index or/and a mutilactity index or/and a lambing number index.
In order to achieve the technical purpose, the second aspect of the invention provides a probe combination for detecting the reproductive performance of a meat sheep, wherein the probe combination detects the SNP site combination of the reproductive performance of the meat sheep in the first aspect.
In order to achieve the technical object of the present invention, the third aspect of the present invention provides a meat sheep reproductive performance gene chip, wherein the gene chip is loaded with the probe combination of the second aspect.
In order to achieve the technical purpose of the present invention, the fourth aspect of the present invention provides a kit for detecting reproductive performance of sheep, comprising the detection probe combination of the second aspect or the gene chip of the third aspect.
In order to achieve the technical object of the present invention, a fifth aspect of the present invention provides the SNP site combination of the first aspect, the detection probe combination of the second aspect, the gene chip of the third aspect, or the kit of the fourth aspect, wherein the kit comprises:
(1) the application in screening sheep varieties;
(2) the application in sheep variety identification;
(3) the application in sheep breeding;
(4) the application in germplasm resource protection;
(5) application in germplasm resource improvement.
Has the advantages that:
1. the invention provides an SNP locus combination which is good in universality at home and abroad and is only composed of 2917 SNP loci of meat sheep related to reproductive performance based on the genetic resource research of a plurality of foreign meat sheep varieties and Chinese local meat sheep varieties.
2. Compared with the existing high-density chip, the probe, the gene chip and the kit formed based on the combination of the reproductive performance SNP sites have the advantages of small flux, low cost, easier analysis, wide universality and wide market prospect.
Drawings
FIGS. 1-5 are Manhattan plots of example 1 for different sets of reproductive traits;
fig. 6 is a result graph of the present application in which the determination result of the population threshold analysis is subjected to the significance test.
Detailed Description
The following examples further illustrate the present invention but are not to be construed as limiting the invention. Modifications or substitutions to methods, procedures, or conditions of the invention may be made without departing from the spirit and scope of the invention. The experimental procedures used in the following examples are all conventional procedures unless otherwise specified. Materials, reagents and the like used in the following examples are commercially available unless otherwise specified.
Example 1 reproductive Performance SNP site combinations for meat sheep
1. Acquisition of Total SNP set
The method comprises the steps of carrying out high-depth sequencing on 248 meat sheep individuals including 16 wild sheep Asia Morvelon, 172 local breeds and 60 breeding breeds covering Asia, Europe, Africa and the middle east, wherein the average sequencing depth is 25.7 x, comparing with a sheep 4.0 reference genome (obtained from NCBI) issued in 2015 by two modes of SAMtols and GATK by applying a re-sequencing analysis process, and forming an SNP set by common results obtained by comparing the two modes, wherein the SNP set comprises 2836 ten thousand SNP sites. Specifically, the high-depth sequencing of a plurality of meat sheep individuals is completed by a biological sequencing company, and the sequencing results completed by the biological sequencing company can achieve the technical purpose of the invention, which is not limited by the invention. According to the method, a Fastq file returned by a sequencing company is compared to a reference genome sheep v4.0 through BWA software to obtain a BAM file, a sample BAM file is analyzed by utilizing SAMtools and GATK software to obtain a VCF file containing group SNP typing information, VCF results obtained in the two modes are merged, and an SNP set containing 2836 ten thousand SNP sites is obtained after quality screening.
Specifically, the meat Sheep breeds used in the present invention include small tailed han Sheep, Sishui fur Sheep, cauda Han Sheep, placer Sheep from Shandong, Hu Sheep from Jiangsu, Ningxia Sheep from Ningxia, Allete Sheep, Pasteur Sheep, Dorper Sheep, merino Sheep (fine wool Sheep), merino Sheep, saffron, Mullerian black Sheep, Dolange Sheep, Waggir Sheep Sheep, Finland Sheep (Finnshel) from Finland, Weisang island Sheep (Ouessant), Shetland Sheep (Shetland), Soogote Sheep (Sologote), Solulan island Sheep (Gotland), Derenche Hechen Sheep (Drente Hehen), Bangla Sheep from Esche Sheep (Shega Sheep), Gagne Sheep (Shorgora), Boguer Sheep (Akeland), Gagne Sheep (Africa Sheep) from Africa Sheep (Africa Sheep), Gagne Sheep (Africa Sheep), Sheep (Africa Sheep) from Yan Sheep (Africa Sheep), Sheep (Africa Sheep) from Eben Fa Sheep), Sheep (Africa Sheep) from Eben Sheep (Sheep) from Eben, Wuda Sheep (Uda Sheep), Jialong Keyan Sheep from African Bukenna (Djallonk cell Sheep), Morse Sheep (Mossi Sheep), Sahellian Sheep (Sahellian Sheep), Kernel Sheep from West noncancylon (Cameroon Sheep), Arhua Sheep from Iraq (Awassi Sheep), Hamdani Sheep (Hamdani Sheep), Marzhe Sheep from Asbehabaijiang (Mazekh Sheep), Grey-Shiraz Sheep from Iran (Grey-Shiraz Sheep), Gekkel Sheep (Ghezel Sheep), African Sanli Sheep (Afshiari Sheep), Sharl Sheep (Shahr Sheep), Shal Sheep (Shal Sheep), Markui Sheep (Makui Sheep), Moghania Sheep (Morgana Sheep), Sheata Sheep from Bakura Sheep (Skura Sheep), Kakura Sheep from Askura Sheep (Askularn Sheep), and Haemarkshiro Sheep from Astro Sheep.
2. Screening of candidate genes and functional regions thereof
According to the method, the sheep varieties are grouped according to the obvious difference of the domestic sheep varieties and the foreign sheep varieties in reproduction traits, XP-CLR is used for sweeping the multi-locus allele frequency difference between each group of sheep to scan out a reproduction-related functional region (shown in figure 1), meanwhile, pi ratio (namely pi value) is used for excavating the reproduction-related functional region in the sheep varieties in each group, and then the intersection of the two results is taken to screen out the reproduction-related functional region. Then, the genes in the region are screened by referring to the published gene research results, and finally 5 breeding-related and well-defined candidate genes UBE2Q1, DGCR8, BMPR1B, PAPPA and IGF1 are determined, and the corresponding functional regions of the candidate genes are determined by perl scripts.
Specifically, in one embodiment of the invention, the breeding characteristics of the domestic sheep variety and the foreign sheep variety are grouped according to the obvious difference, and the method comprises the following steps: because of the obvious difference of the reproduction characters of the Finland sheep and the Tan sheep, the obvious difference of the reproduction characters of the Hu sheep and the Tan sheep, the obvious difference of the reproduction characters of the small tailed Han sheep and the Tan sheep, the obvious difference of the reproduction characters of the Gotland island sheep and the obvious difference of the reproduction characters of the depression sheep and the Tan sheep, thus an XP-CLR sweep of the above groups resulted in the Manhattan plot of the Finnish sheep Vs Tan (FIN Vs TAN) shown in figure 1, FIG. 2 shows the Manhattan chart of Hu sheep Vs Tan (HUS Vs TAN), FIG. 3 shows the Manhattan chart of small tailed Han sheep Vs Tan (SXW Vs TAN), FIG. 4 shows a Manhattan chart of a Gotland Vs Tan sheep (GOT Vs TAN), and FIG. 5 shows a Manhattan chart of a hole Vs Tan sheep (WDS Vs TAN).
3. Extraction of SNP sites corresponding to functional genes
Searching SNP loci corresponding to the functional regions of the candidate genes determined in the step 2 in the total SNP set by utilizing bedtools to obtain a locus combination which is associated with 5 reproduction-related functional genes including UBE2Q1, DGCR8, BMPR1B, PAPPA and IGF1 and only comprises 2917 SNP loci.
EXAMPLE 2 preparation of SNP Gene chip for reproductive Performance of meat sheep
Based on the SNP site combinations obtained in example 1, a person skilled in the art can prepare SNP gene chips with reproductive performance of meat sheep in any way, and also can entrust the preparation of SNP gene chips to bio-companies, which is not limited by the present invention, for example, Illumina, Affymetrix or Agilent, and it should be noted that the gene chips prepared based on the SNP sites provided in example 1 of the present invention all belong to the protection scope of the present invention.
In one embodiment of the present invention, the method of Illumina corporation can be used to prepare the SNP chip for breeding meat sheep, which comprises a glass substrate and 2917 magnetic beads in the substrate pore, wherein each magnetic bead is coupled with a probe for detecting the site represented by SNP0001-SNP2917 in example 1, and is used to detect the target sample, and the 23-base sequence coupled to the end of the bead is an Address sequence and is also the 5' end of the DNA fragment, which is the tag sequence for labeling the bead. The 50 bases at the far end of the bead were 3' -terminal sequences, which were Probe sequences, and which complementarily hybridized with the target DNA and could recognize the site indicated by SNP0001-SNP2917 in example 1.
EXAMPLE 3 SNP detection kit
Based on the SNP site combinations obtained in example 1, a person skilled in the art can prepare SNP detection kits for reproductive performance of meat sheep in any way, and also can entrust biological companies to prepare the SNP detection kits, which are not limited by the present invention, for example, Illumina company, Affymetrix company, or Agilent company, and it should be noted that the detection kits prepared based on the SNP sites provided in example 1 of the present invention all belong to the protection scope of the present invention.
In one embodiment of the present invention, in order to detect the target sample by using the gene chip provided in embodiment 2, the kit further comprises four labeled dideoxynucleotides, a polymerase, a biotin-labeled anti-streptavidin antibody, and a DNP-labeled anti-xenoantibody FC-terminal antibody.
Of course, different gene chips should be adapted to the corresponding reagents, and the present invention is not limited thereto.
EXAMPLE 4 detection of reproductive Performance of meat sheep
In one embodiment of the present invention, four labeled dideoxynucleotides and polymerase are added when the detection is performed using the gene chip prepared by the method provided by Illumina company, based on the SNP site combination obtained in example 1 or the SNP gene chip provided in example 2 or the SNP detection kit provided in example 3. Wherein A, T two nucleotides are labeled with DNP (dinitrobenzene), C, G two bases are labeled with biotin, polymerase adds a dideoxynucleotide at the 3' end of the probe and attaches a label at the same time, and then adds green fluorescence labeled streptavidin and red fluorescence labeled anti-DNP antibody. The green fluorescence labeled streptavidin specifically binds to biotin, and C, G bases with biotin are colored green. A red fluorescent-labeled anti-DNP antibody was bound to DNP to make A, T bp with DNP appear red, and a biotin-labeled anti-streptavidin antibody and a DNP-labeled anti-xenoantibody FC-terminal antibody were further added. The two antibodies are added to further amplify the fluorescent signal in cascade, and after the antibodies are combined, the free antibodies are washed away. Scanning was performed under a scanner. If the emitted light is green, the site of SNP binding is indicated to be homozygote of "G" base. If red light is emitted, the SNP site is homozygote of the A base. If the light intensity of the two colors of light is not much, the SNP locus is a heterozygote of 'A' and 'G', if the light intensity is not high, the base deletion is judged, finally, the result values of the genotype frequencies of all the loci in the target sample are counted, namely, the frequencies of the reference type homozygote, the heterozygote, the mutant type homozygote and the base deletion in 2917 loci are counted as frequency values, and the result value of the target sample is obtained after the genotype frequency values of each locus are accumulated.
And obtaining the judgment result of the target sample after the statistical result value is compared with the group threshold value.
Specifically, the population threshold value of the present application is obtained by analyzing a high-frequency population (FIN-HUS-SXW-GOT-WDS) and a low-frequency population (TAN), and the method is the same as above.
According to the method, the significance test (independent sample ManWhitney U test) is carried out on the judgment results of analyzing the high-frequency population (FIN-HUS-SXW-GOT-WDS) and the low-frequency population (TAN), the results are shown in figure 6, as can be seen from the results in the figure, P is less than 0.01, the difference is extremely significant, and the judgment results obtained by adopting the method have accuracy and effectiveness.
Application examples
Selecting a female sheep with strong representativeness and large popularization area of 8 unknown varieties (numbered as PZ01-PZ 08), preparing the SNP gene chip of the embodiment 2 according to the site information provided by the embodiment 1, detecting the reproductive performance of the 8 sheep varieties by using the kit provided by the embodiment 3, comparing the result values of the reference homozygote, heterozygote, mutant homozygote and base deletion in each site of each sheep variety to be detected with a population threshold value, and displaying the comparison result: the female sheep numbered PZ04, PZ06 and PZ08 are low-breed varieties, and the female sheep numbered PZ01, PZ02, PZ03, PZ05 and PZ07 are high-breed varieties.
The applicant breeds the 8 unknown breeds of female sheep under the same breeding condition, the lambing rate and the number of lambs born by the 8 unknown breeds in the last 2 years are observed and counted, and the statistical result shows that the numbers PZ04, PZ06 and PZ08 can only realize one-birth and one-birth in one year, only one lamb in one birth and the reproductive capacity of the female sheep is weaker than that of the female sheep in other numbers.
Industrial applications
The SNP marker, the SNP probe and the SNP chip which are prepared based on 2917 SNP sites and provided by the application carry out reproduction genetic evaluation on sheep individuals on a genome level so as to obtain higher breeding value estimation accuracy. The method selects the traits which are difficult to measure in the early stage, shortens the generation interval, accelerates the breeding process and further saves a large amount of breeding cost.
The preferred embodiments of the present invention have been described in detail, however, the present invention is not limited to the specific details of the above embodiments, and various simple modifications may be made to the technical solution of the present invention within the technical idea of the present invention, and these simple modifications are within the protective scope of the present invention.
It should be noted that the various technical features described in the above embodiments can be combined in any suitable manner without contradiction, and the invention is not described in any way for the possible combinations in order to avoid unnecessary repetition.
In addition, any combination of the various embodiments of the present invention is also possible, and the same should be considered as the disclosure of the present invention as long as it does not depart from the spirit of the present invention.

Claims (4)

1. A sheep reproductive performance test probe combination, which is characterized in that the probe combination detects 2917 sites as shown in table 1, wherein the 2917 sites are contained in gene fragments of UBE2Q1, DGCR8, BMPR1B, PAPPA and IGF1, and the physical position information of the genes is determined based on sheep v4.0 genome sequence alignment, and is specifically shown in table 1.
2. A sheep reproductive performance gene chip, which is loaded with the sheep reproductive performance detection probe combination of claim 1.
3. A kit for detecting sheep reproductive performance, which comprises the detection probe combination of claim 1 or the gene chip of claim 2.
4. The detection probe combination of claim 1 or the gene chip of claim 2 or the kit of claim 3, having the use of any one of the following:
(1) the application in screening sheep varieties;
(2) the application in sheep variety identification;
(3) the application in sheep breeding;
(4) the application in germplasm resource protection;
(5) application in germplasm resource improvement.
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