sorgsd

Variation ID : sbi2153

Variation Detail

Variation ID	sbi2153
Type	SNP
Position	Chr01 40427-40427
Ref /Alleles	A/ G
MAF	A: 0.489
5' Flank	AAATCTTTTGAATCTAATTAATTCATAATT
3' Flank	AATAATAATTGACAAATACAAATAAAAGTG

Individual Alleles

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

Alleles Distribution

Gene Annotation

Variation ID	Gene	Consequence	Transcript	Type	cDNA	Source/target codon	Protein Name	protein pos	source/target Amino acid
sbi2153	Sobic.001G000400	upstream gene variant \|MODIFIER	Sobic.001G000400.2	mRNA			Sobic.001G000400.2.p
sbi2153	Sobic.001G000400	upstream gene variant \|MODIFIER	Sobic.001G000400.5	mRNA			Sobic.001G000400.5.p
sbi2153	Sobic.001G000400	intron variant \|MODIFIER	Sobic.001G000400.4	mRNA			Sobic.001G000400.4.p
sbi2153	Sobic.001G000400	intron variant \|MODIFIER	Sobic.001G000400.3	mRNA			Sobic.001G000400.3.p
sbi2153	Sobic.001G000400	intron variant \|MODIFIER	Sobic.001G000400.1	mRNA			Sobic.001G000400.1.p
sbi2153	Sobic.001G000400	upstream gene variant \|MODIFIER	Sobic.001G000400.6	mRNA			Sobic.001G000400.6.p

Genome Browser