VIGGS:Variant information

Chr10:4217837 - 4221301

Filter

[SNPs] [Indels]

SNPs

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
4218065	G	C	37	1506.77	1.00	DOWNSTREAM(\|1422\|\|None\|Vigan.10G042300.01), NON_SYNONYMOUS_CODING(MISSENSE\|gGt/gCt\|G42A\|None\|Vigan.10G042200.01), UPSTREAM(\|4454\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218266	T	G	70	3111.77	1.00	DOWNSTREAM(\|1221\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4253\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218272	G	T	70	3153.77	1.00	DOWNSTREAM(\|1215\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4247\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218312	T	C	65	2554.77	1.00	DOWNSTREAM(\|1175\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4207\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218390	C	A	63	2804.77	1.00	DOWNSTREAM(\|1097\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4129\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218406	A	C	65	2966.77	1.00	DOWNSTREAM(\|1081\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4113\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218412	T	C	61	2963.77	1.00	DOWNSTREAM(\|1075\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4107\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218423	A	G	63	2815.77	1.00	DOWNSTREAM(\|1064\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4096\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218452	A	C	64	2862.77	1.00	DOWNSTREAM(\|1035\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4067\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218453	C	A	65	2862.77	1.00	DOWNSTREAM(\|1034\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4066\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218856	T	G	39	1531.77	1.00	DOWNSTREAM(\|631\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3663\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218921	A	G	55	2265.77	1.00	DOWNSTREAM(\|566\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3598\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219002	A	C	63	2737.77	1.00	DOWNSTREAM(\|485\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3517\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219024	T	A	56	2426.77	1.00	DOWNSTREAM(\|463\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3495\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219098	T	C	46	1810.77	1.00	DOWNSTREAM(\|389\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3421\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219426	T	G	55	2178.77	1.00	DOWNSTREAM(\|61\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3093\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219521	A	G	62	2475.77	1.00	INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|2998\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|874\|\|None\|Vigan.10G042300.01)	Vigna nepalensis
4220179	G	A	50	2240.77	1.00	UPSTREAM(\|2340\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|127\|\|None\|Vigan.10G042200.01), UTR_3_PRIME(\|216\|\|None\|Vigan.10G042300.01)	Vigna nepalensis
4220226	A	G	44	1771.77	1.00	UPSTREAM(\|2293\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|169\|\|None\|Vigan.10G042300.01), UTR_3_PRIME(\|174\|\|None\|Vigan.10G042200.01)	Vigna nepalensis

Indels

Position	Ref.	Alt.	Depth	Score	Freq. Of Alt.	Effect	Species
4218229	C	CT	60	1706.73	1.00	DOWNSTREAM(\|1257\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4289\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4218476	GA	G	59	1799.73	1.00	DOWNSTREAM(\|1010\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|4042\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219048	C	CTGT	54	2308.73	1.00	DOWNSTREAM(\|438\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3470\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219114	A	AGAAAAAAAAATAAAGTAACAAAACAAGATTACAGCTACGTTTTTTTGTTAAC	43	3253.73	1.00	DOWNSTREAM(\|372\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3404\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219157	AT	A	54	1888.73	1.00	DOWNSTREAM(\|329\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3361\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219404	TG	T	55	2422.73	1.00	DOWNSTREAM(\|82\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3114\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219407	G	GA	54	2422.73	1.00	DOWNSTREAM(\|79\|\|None\|Vigan.10G042300.01), INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|3111\|\|None\|Vigan.10G042400.01)	Vigna nepalensis
4219675	G	GGTGT	61	3058.73	1.00	INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|2843\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|719\|\|None\|Vigan.10G042300.01)	Vigna nepalensis
4219676	C	CATCATTTTCCAAACTAG	59	3058.73	1.00	INTRON(\|\|\|None\|Vigan.10G042200.01), UPSTREAM(\|2842\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|718\|\|None\|Vigan.10G042300.01)	Vigna nepalensis
4220172	A	AAAC	51	2371.73	1.00	UPSTREAM(\|2346\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|121\|\|None\|Vigan.10G042200.01), UTR_3_PRIME(\|222\|\|None\|Vigan.10G042300.01)	Vigna nepalensis
4220174	T	TG	49	2506.73	1.00	UPSTREAM(\|2344\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|123\|\|None\|Vigan.10G042200.01), UTR_3_PRIME(\|220\|\|None\|Vigan.10G042300.01)	Vigna nepalensis
4220178	G	GC	49	2276.73	1.00	UPSTREAM(\|2340\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|127\|\|None\|Vigan.10G042200.01), UTR_3_PRIME(\|216\|\|None\|Vigan.10G042300.01)	Vigna nepalensis
4220302	T	TATATATATATATATATATATATA	13	219.73	0.54	UPSTREAM(\|2216\|\|None\|Vigan.10G042400.01), UTR_3_PRIME(\|251\|\|None\|Vigan.10G042200.01), UTR_3_PRIME(\|92\|\|None\|Vigan.10G042300.01)	Vigna nepalensis