sorgsd

Variation ID : sbi2017

Variation Detail

Variation ID	sbi2017
Type	SNP
Position	Chr01 38326-38326
Ref /Alleles	G/ T
MAF	G: 0.392
5' Flank	AAACGGGCCCTTAAATTTGTATGGTACGGG
3' Flank	GTCTTTTCAGAATTGGGCAATAAGGTCCTG

Individual Alleles

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

Alleles Distribution

Gene Annotation

Variation ID	Gene	Consequence	Transcript	Type	cDNA	Source/target codon	Protein Name	protein pos	source/target Amino acid
sbi2017	Sobic.001G000400	upstream gene variant \|MODIFIER	Sobic.001G000400.2	mRNA			Sobic.001G000400.2.p
sbi2017	Sobic.001G000400	upstream gene variant \|MODIFIER	Sobic.001G000400.5	mRNA			Sobic.001G000400.5.p
sbi2017	Sobic.001G000400	intron variant \|MODIFIER	Sobic.001G000400.4	mRNA			Sobic.001G000400.4.p
sbi2017	Sobic.001G000400	intron variant \|MODIFIER	Sobic.001G000400.3	mRNA			Sobic.001G000400.3.p
sbi2017	Sobic.001G000400	intron variant \|MODIFIER	Sobic.001G000400.1	mRNA			Sobic.001G000400.1.p
sbi2017	Sobic.001G000400	upstream gene variant \|MODIFIER	Sobic.001G000400.6	mRNA			Sobic.001G000400.6.p

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