VIGGS:Variant information

Chr08:781558 - 784904

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SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
781578	C	A	51	2008.77	1.00	UTR_5_PRIME(\|155\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781604	A	T	47	2187.77	1.00	UTR_5_PRIME(\|129\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781616	C	T	53	2479.77	1.00	UTR_5_PRIME(\|117\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781637	T	A	55	2411.77	1.00	UTR_5_PRIME(\|96\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781672	T	C	53	2390.77	1.00	UTR_5_PRIME(\|61\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781676	A	G	53	2398.77	1.00	START_GAINED(\|\|\|None\|Vigan.08G011200.01), UTR_5_PRIME(\|57\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781710	T	C	56	2439.77	1.00	UTR_5_PRIME(\|23\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781739	C	G	62	2480.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|Ctt/Gtt\|L3V\|None\|Vigan.08G011200.01)	Vigna nepalensis
781768	T	C	52	2382.77	1.00	SYNONYMOUS_CODING(SILENT\|ggT/ggC\|G12\|None\|Vigan.08G011200.01)	Vigna nepalensis
781783	C	T	55	2377.77	1.00	SYNONYMOUS_CODING(SILENT\|ctC/ctT\|L17\|None\|Vigan.08G011200.01)	Vigna nepalensis
781816	C	T	56	2533.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781823	G	A	53	2344.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782005	A	G	57	2533.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782018	T	A	56	2581.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782030	A	T	52	2491.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782038	T	C	50	2401.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782136	G	A	44	1698.77	1.00	SYNONYMOUS_CODING(SILENT\|gtG/gtA\|V77\|None\|Vigan.08G011200.01)	Vigna nepalensis
782189	T	A	51	2266.77	1.00	NON_SYNONYMOUS_CODING(MISSENSE\|tTt/tAt\|F95Y\|None\|Vigan.08G011200.01)	Vigna nepalensis
782202	C	T	54	2487.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), SPLICE_SITE_REGION(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782218	T	C	62	2851.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782223	C	A	67	3068.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782287	A	G	66	2942.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782306	T	C	72	3256.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782320	C	T	71	3346.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782333	C	T	74	3343.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782342	C	T	75	3404.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782386	G	A	82	3170.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782433	T	C	80	3605.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782441	C	T	77	3591.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782489	A	G	75	3331.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782597	C	T	49	2175.77	1.00	SYNONYMOUS_CODING(SILENT\|agC/agT\|S112\|None\|Vigan.08G011200.01), UPSTREAM(\|4985\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
782621	G	A	49	2118.77	1.00	SYNONYMOUS_CODING(SILENT\|gaG/gaA\|E120\|None\|Vigan.08G011200.01), UPSTREAM(\|4961\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
782925	T	G	52	2027.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4657\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
782959	C	G	57	2241.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4623\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783027	T	C	56	2552.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4555\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783031	A	G	55	2687.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4551\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783035	A	T	57	2665.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4547\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783038	C	T	54	2530.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4544\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783097	T	A	61	2737.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4485\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783105	A	G	64	2800.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4477\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783161	G	T	59	2180.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4421\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783218	T	C	59	2403.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4364\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783458	A	C	67	2621.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4124\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783485	T	G	62	2452.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|4097\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783599	G	A	82	2891.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3983\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783640	A	G	78	3164.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3942\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783781	T	G	59	2692.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3801\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783785	A	G	61	2692.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3797\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
783839	T	A	61	2323.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3743\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784009	G	A	63	2559.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3573\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784106	C	T	61	2417.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3476\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784141	T	G	51	2087.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3441\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784326	A	T	43	1709.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3256\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784340	G	C	39	1536.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3242\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784407	T	G	51	1974.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3175\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784449	A	C	61	2483.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3133\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784469	A	G	64	2461.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3113\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784489	A	T	64	2900.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3093\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784493	T	A	64	2937.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3089\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784571	G	A	44	1626.77	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3011\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784586	C	T	52	1914.77	1.00	SYNONYMOUS_CODING(SILENT\|tcC/tcT\|S188\|None\|Vigan.08G011200.01), UPSTREAM(\|2996\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784710	G	T	53	2321.77	1.00	UPSTREAM(\|2872\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|46\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784721	G	C	55	2491.77	1.00	UPSTREAM(\|2861\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|57\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784726	C	G	53	2626.77	1.00	UPSTREAM(\|2856\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|62\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784729	T	A	56	2527.77	1.00	UPSTREAM(\|2853\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|65\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784732	G	A	56	2518.77	1.00	UPSTREAM(\|2850\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|68\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784777	G	A	55	2206.77	1.00	UPSTREAM(\|2805\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|113\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784822	A	T	55	2650.77	1.00	UPSTREAM(\|2760\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|158\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784835	C	T	63	2851.77	1.00	UPSTREAM(\|2747\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|171\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784854	T	G	63	2896.77	1.00	UPSTREAM(\|2728\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|190\|\|None\|Vigan.08G011200.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
781691	C	CT	56	2569.73	1.00	UTR_5_PRIME(\|41\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781801	CCT	C	50	2282.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
781852	CTT	C	55	2394.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782016	T	TC	55	2526.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782044	T	TG	49	2392.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782047	T	TTTTTTTA	48	2357.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), SPLICE_SITE_REGION(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782245	T	TC	67	3027.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782452	A	ATTATGATCTGTGC	70	3545.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
782480	C	CT	70	3218.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784354	TTTTCTATTAGTTGGCC	T	42	1833.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3227\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784492	G	GA	63	2938.73	1.00	INTRON(\|\|\|None\|Vigan.08G011200.01), UPSTREAM(\|3089\|\|None\|Vigan.08G011300.01)	Vigna nepalensis
784840	T	TA	59	2752.73	1.00	UPSTREAM(\|2741\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|177\|\|None\|Vigan.08G011200.01)	Vigna nepalensis
784876	C	CTAGGTGTGATGT	67	3195.79	1.00	UPSTREAM(\|2705\|\|None\|Vigan.08G011300.01), UTR_3_PRIME(\|213\|\|None\|Vigan.08G011200.01)	Vigna nepalensis