Variation ID : sbi33825635

Variation Detail



Variation ID sbi33825635
Type INDEL
Position Chr01 42293-42293
Ref /Alleles C/ CCGAAGGGGTCCTCCGT or CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG or CCG or CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGG or CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGC
MAF CCGAAGGGGTCCTCCGT: 0.072
5' Flank TCGCGGTGCTCATGCTCCGACTGCGCTCGC
3' Flank ATGAATTGACTCTAGCTCCTGCAAGCTAGC

Individual Alleles

id Sample Id Type Alleles
1 101 Improved N|N
2 103 Improved N|N
3 107 Improved C|C
4 11 Improved N|N
5 110 Improved C|C
6 123 Landrace N|N
7 131 Improved N|N
8 132 Improved C|C
9 135 Improved N|N
10 137 Improved C|C
11 138 Improved C|C
12 14 Improved C|C
13 140 Improved C|C
14 141 Improved N|N
15 144 Improved N|N
16 150 Improved CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
17 154 Improved N|N
18 159 Landrace N|N
19 16 Improved C|C
20 161 Landrace C|C
21 167 Improved C|C
22 168 Improved C|C
23 170 Improved C|C
24 173 Improved N|N
25 175 Improved N|N
26 176 Improved C|C
27 182 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
28 186 Improved C|C
29 190 Improved C|C
30 192 Improved C|C
31 194 Improved C|C
32 195 Improved N|N
33 197 Improved C|C
34 J22 Landrace C|C
35 J26 Landrace N|N
36 J5 Landrace N|N
37 J50 Landrace N|N
38 2001 Landrace N|N
39 2005 Improved N|N
40 2008 Improved N|N
41 2009 Landrace C|C
42 201 Improved N|N
43 2010 Landrace C|CCGAAGGGGTCCTCCGT
44 2016 Improved C|C
45 2019 Improved C|C
46 202 Improved C|C
47 2021 Improved C|CCGAAGGGGTCCTCCGT
48 2023 Improved N|N
49 2026 Improved C|C
50 2029 Improved N|N
51 2030 Landrace N|N
52 2031 Landrace C|C
53 2036 Improved C|C
54 2037 Improved N|N
55 2038 Improved C|C
56 2039 Improved N|N
57 204 Improved C|C
58 2042 Improved N|N
59 2043 Improved N|N
60 2048 Improved N|N
61 2049 Improved N|N
62 205 Improved C|C
63 2050 Improved N|N
64 2052 Improved C|C
65 2054 Improved N|N
66 2056 Improved C|C
67 2059 Improved N|N
68 206 Improved C|C
69 2064 Improved C|C
70 2065 Improved C|C
71 2067 Improved N|N
72 2068 Improved C|C
73 2069 Improved C|C
74 2071 Improved N|N
75 2074 Improved N|N
76 2075 Improved C|C
77 2076 Improved C|C
78 2080 Improved C|C
79 2081 Improved C|C
80 2082 Improved N|N
81 2086 Improved C|CCGAAGGGGTCCTCCGT
82 2088 Improved C|C
83 260 Wild sorghum C|C
84 261 Improved C|C
85 262 Improved C|C
86 263 Improved C|C
87 286 Improved C|C
88 29 Improved C|C
89 3 Improved C|C
90 302546 S.propinquum N|N
91 31 Improved N|N
92 32 Improved C|C
93 34 Improved C|C
94 346 Landrace C|C
95 348 Wild sorghum N|N
96 353 Wild sorghum N|N
97 355 Wild sorghum CCGAAGGGGTCCTCCGT|CCGAAGGGGTCCTCCGT
98 357 Wild sorghum C|CCGAAGGGGTCCTCCGT
99 364 Wild sorghum N|N
100 367 Landrace N|N
101 s37 S.propinquum N|N
102 s38 S.propinquum CCGAAGGGGTCCTCCGT|CCGAAGGGGTCCTCCGT
103 370 Landrace N|N
104 377 Wild sorghum N|N
105 392 Wild sorghum C|C
106 394 Wild sorghum CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
107 40 Improved N|N
108 42 Improved C|C
109 43 Improved C|C
110 45 Improved C|C
111 47 Improved C|C
112 48 Improved N|N
113 51 Improved N|N
114 53 Improved C|C
115 56 Improved C|C
116 61 Improved C|C
117 62 Improved C|C
118 66 Landrace N|N
119 67 Improved N|N
120 68 Improved C|C
121 70 Improved C|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGG
122 73 Improved C|C
123 75 Improved C|C
124 88 Improved C|C
125 89 Improved C|C
126 91 Improved N|N
127 92 Improved C|C
128 93 Improved C|C
129 94 Improved N|N
130 95 Improved C|C
131 96 Improved N|N
132 97 Improved C|C
133 s1 Improved N|N
134 s36 Wild sorghum N|N
135 s2 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG
136 s3 Improved C|C
137 s32 Improved C|C
138 s43 Weedy N|N
139 s40 Landrace N|N
140 s41 Weedy N|N
141 s39 Landrace N|N
142 s42 Landrace C|CCGAAGGGGTCCTCCGT
143 s47 Improved C|C
144 s5 Landrace N|N
145 GW102 Landrace N|N
146 GW103 Landrace N|N
147 GW104 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGG
148 GW105 Landrace C|C
149 GW16 Landrace N|N
150 GW2 Landrace N|N
151 GW34 Landrace N|N
152 GW37 Landrace C|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
153 GW58 Landrace C|CCGAAGGGGTCCTCCGT
154 GW59 Landrace N|N
155 GW9 Landrace C|C
156 s4 Weedy C|C
157 s6 Improved C|C
158 s7 Landrace N|N
159 s8 Landrace C|C
160 s9 Landrace N|N
161 J101 Landrace N|N
162 J103 Improved N|N
163 J112 Landrace N|N
164 J113 Improved N|N
165 J129 Improved C|C
166 J130 Improved C|C
167 J136 Improved C|C
168 J152 Improved C|C
169 J2 Landrace N|N
170 J20 Landrace N|N
171 J4 Landrace C|C
172 J42 Landrace N|N
173 J44 Landrace N|N
174 J49 Landrace N|N
175 J52 Landrace N|N
176 J53 Landrace N|N
177 J54 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
178 J57 Landrace N|N
179 J59 Landrace N|N
180 J64 Landrace N|N
181 J66 Landrace N|N
182 J67 Landrace C|C
183 J69 Landrace C|CCG
184 J87 Landrace N|N
185 J99 Landrace C|C
186 s45 Landrace CCGAAGGGGTCCTCCGT|CCGAAGGGGTCCTCCGT
187 s11 Improved N|N
188 s10 Improved N|N
189 s46 Improved C|C
190 s12 Improved N|N
191 s13 Landrace C|C
192 MHMD Landrace C|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG
193 s14 Improved C|C
194 s15 Improved C|C
195 s34 Weedy N|N
196 s33 Wild sorghum N|N
197 s21 Wild sorghum C|CCG
198 s16 Wild sorghum C|C
199 s44 Improved N|N
200 s35 Landrace N|N
201 s31 Wild sorghum C|CCGAAGGGGTCCTCCGT
202 s17 Improved C|C
203 s18 Improved C|C
204 s20 Improved C|C
205 s19 Improved C|C
206 s22 Landrace CCGAAGGGGTCCTCCGT|CCGAAGGGGTCCTCCGT
207 s23 Landrace N|N
208 s24 Landrace N|N
209 s25 Landrace N|N
210 s26 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG
211 s27 Landrace N|N
212 s28 Landrace N|N
213 s29 Landrace C|CCGAAGGGGTCCTCCGT
214 s30 Landrace N|N
215 SL25 Wild sorghum N|N
216 SL105 Wild sorghum N|N
217 SL108 Wild sorghum C|C
218 SL109 Wild sorghum N|N
219 SL12 Wild sorghum N|N
220 SL129 Wild sorghum CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
221 SL130 Wild sorghum C|C
222 SL135 Wild sorghum N|N
223 SL136 Wild sorghum N|N
224 SL137 Wild sorghum N|N
225 SL138 Wild sorghum N|N
226 SL140 Wild sorghum N|N
227 SL141 Wild sorghum N|N
228 SL19 Wild sorghum N|N
229 SL28 Wild sorghum N|N
230 SL32 Wild sorghum N|N
231 SL35 Wild sorghum N|N
232 SL36 Wild sorghum N|N
233 SL37 Wild sorghum N|N
234 SL39 Wild sorghum N|N
235 SL41 Wild sorghum C|C
236 SL43 Wild sorghum C|C
237 SL47 Wild sorghum N|N
238 SL49 Wild sorghum N|N
239 SL51 Wild sorghum N|N
240 SL53 Wild sorghum C|C
241 SL62 Wild sorghum C|C
242 SL83 Wild sorghum C|C
243 SL97 Landrace N|N
244 s48 Improved C|CCGAAGGGGTCCTCCGT
245 Tu13 Wild sorghum C|C
246 Tu14 Wild sorghum N|N
247 Tu30 Wild sorghum N|N
248 Tu5 Wild sorghum N|N
249 WSC5 Landrace C|C
250 WSC15 Landrace C|C
251 WSC19 Landrace C|CCGAAGGGGTCCTCCGT
252 WSC30 Landrace N|N
253 WSC52 Landrace N|N
254 WSC6 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
255 WSC61 Landrace C|C
256 WSC71 Improved C|C
257 WSC72 Landrace C|C
258 WSC79 Landrace N|N
259 WSC94 Landrace C|C
260 WSC99 Landrace CCGAAGGGGTCCTCCGT|CCGAAGGGGTCCTCCGT
261 WSC100 Landrace N|N
262 WSC104 Landrace C|C
263 WSC105 Landrace C|C
264 WSC12 Landrace C|C
265 WSC13 Landrace N|N
266 WSC16 Landrace C|C
267 WSC17 Landrace N|N
268 WSC18 Landrace C|C
269 WSC20 Landrace N|N
270 WSC24 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG
271 WSC25 Landrace N|N
272 WSC29 Landrace N|N
273 WSC31 Landrace CCGAAGGGGTCCTCCGT|CCGAAGGGGTCCTCCGT
274 WSC32 Landrace C|C
275 WSC34 Landrace N|N
276 WSC38 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAG
277 WSC39 Improved N|N
278 WSC40 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
279 WSC54 Landrace N|N
280 WSC56 Landrace N|N
281 WSC59 Landrace C|C
282 WSC68 Landrace C|C
283 WSC70 Landrace C|C
284 WSC73 Landrace C|C
285 WSC81 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGGATGCTGATGATGCGACTCCGCCATCGTCGTCGTCTATGTATCCACCGCCACCGCGCCGGACGAACGACCGACGATGTCGTCGTCG
286 WSC85 Improved N|N
287 WSC91 Landrace N|N
288 WSC93 Landrace C|C
289 WSC98 Landrace CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGG|CCGAAGGGGTCCTCCGTATCCATCTGCCGGAACGACTGCGAGATGGAGGAGCCCCAGCTCAGGCTCCGACGGCTAGACGAAGCCAGCACCGCCGGGTGCGG

Alleles Distribution

Gene Annotation



Variation ID Gene Consequence Transcript Type cDNA Source/target codon Protein Name protein pos source/target Amino acid
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.2 mRNA Sobic.001G000400.2.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.2 mRNA Sobic.001G000400.2.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.2 mRNA Sobic.001G000400.2.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.2 mRNA Sobic.001G000400.2.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.2 mRNA Sobic.001G000400.2.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.5 mRNA Sobic.001G000400.5.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.5 mRNA Sobic.001G000400.5.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.5 mRNA Sobic.001G000400.5.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.5 mRNA Sobic.001G000400.5.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.5 mRNA Sobic.001G000400.5.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.4 mRNA 150 Sobic.001G000400.4.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.4 mRNA 150 Sobic.001G000400.4.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.4 mRNA 150 Sobic.001G000400.4.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.4 mRNA 150 Sobic.001G000400.4.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.4 mRNA 150 Sobic.001G000400.4.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.3 mRNA 150 Sobic.001G000400.3.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.3 mRNA 150 Sobic.001G000400.3.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.3 mRNA 150 Sobic.001G000400.3.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.3 mRNA 150 Sobic.001G000400.3.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.3 mRNA 150 Sobic.001G000400.3.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.1 mRNA 150 Sobic.001G000400.1.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.1 mRNA 150 Sobic.001G000400.1.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.1 mRNA 150 Sobic.001G000400.1.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.1 mRNA 150 Sobic.001G000400.1.p
sbi33825635 Sobic.001G000400 5_prime UTR variant |MODIFIER Sobic.001G000400.1 mRNA 150 Sobic.001G000400.1.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.6 mRNA Sobic.001G000400.6.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.6 mRNA Sobic.001G000400.6.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.6 mRNA Sobic.001G000400.6.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.6 mRNA Sobic.001G000400.6.p
sbi33825635 Sobic.001G000400 upstream gene variant |MODIFIER Sobic.001G000400.6 mRNA Sobic.001G000400.6.p

Genome Browser