Variant information

Chr09:3299881 - 3303817

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 [SNPs] [Indels] [SSR-associated indels]

SNPs

PositionRef.Alt.DepthScoreFreq. Of Alt.EffectSpecies
3300008GC491975.771.00UPSTREAM(|1293||None|Vigan.09G029200.01), UTR_3_PRIME(|85||None|Vigan.09G029300.01)Vigna nepalensis
3300038AT532104.771.00UPSTREAM(|1323||None|Vigan.09G029200.01), UTR_3_PRIME(|55||None|Vigan.09G029300.01)Vigna nepalensis
3300417CT341222.771.00SYNONYMOUS_CODING(SILENT|ccG/ccA|P225|None|Vigan.09G029300.01), UPSTREAM(|1702||None|Vigan.09G029200.01)Vigna nepalensis
3300675GA411873.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|1960||None|Vigan.09G029200.01)Vigna nepalensis
3300735TA381614.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2020||None|Vigan.09G029200.01)Vigna nepalensis
3300860TC492234.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2145||None|Vigan.09G029200.01)Vigna nepalensis
3300866TA492167.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2151||None|Vigan.09G029200.01)Vigna nepalensis
3300939AC632798.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2224||None|Vigan.09G029200.01)Vigna nepalensis
3300941AT622798.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2226||None|Vigan.09G029200.01)Vigna nepalensis
3300997AC562167.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2282||None|Vigan.09G029200.01)Vigna nepalensis
3301044GT662568.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2329||None|Vigan.09G029200.01)Vigna nepalensis
3301151AG542141.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2436||None|Vigan.09G029200.01)Vigna nepalensis
3301195CG401576.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2480||None|Vigan.09G029200.01)Vigna nepalensis
3301285TG542128.771.00SYNONYMOUS_CODING(SILENT|ggA/ggC|G171|None|Vigan.09G029300.01), UPSTREAM(|2570||None|Vigan.09G029200.01)Vigna nepalensis
3301360CT562298.771.00SYNONYMOUS_CODING(SILENT|caG/caA|Q146|None|Vigan.09G029300.01), UPSTREAM(|2645||None|Vigan.09G029200.01)Vigna nepalensis
3301413CA522028.771.00INTRON(|||None|Vigan.09G029300.01), SPLICE_SITE_REGION(|||None|Vigan.09G029300.01), UPSTREAM(|2698||None|Vigan.09G029200.01)Vigna nepalensis
3301476CT552265.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2761||None|Vigan.09G029200.01)Vigna nepalensis
3301516AT592384.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2801||None|Vigan.09G029200.01)Vigna nepalensis
3301530TC552559.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2815||None|Vigan.09G029200.01)Vigna nepalensis
3301534GA562577.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2819||None|Vigan.09G029200.01)Vigna nepalensis
3301538GC522585.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2823||None|Vigan.09G029200.01)Vigna nepalensis
3301548CT562389.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2833||None|Vigan.09G029200.01)Vigna nepalensis
3301566GA502215.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2851||None|Vigan.09G029200.01)Vigna nepalensis
3301570AC512288.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2855||None|Vigan.09G029200.01)Vigna nepalensis
3301589TC552574.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2874||None|Vigan.09G029200.01)Vigna nepalensis
3301604TA642597.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2889||None|Vigan.09G029200.01)Vigna nepalensis
3301666CT672721.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2951||None|Vigan.09G029200.01)Vigna nepalensis
3301694AT612442.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2979||None|Vigan.09G029200.01)Vigna nepalensis
3301725CA562160.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3010||None|Vigan.09G029200.01)Vigna nepalensis
3301772CA602324.771.00SYNONYMOUS_CODING(SILENT|acG/acT|T122|None|Vigan.09G029300.01), UPSTREAM(|3057||None|Vigan.09G029200.01)Vigna nepalensis
3301863CT512327.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3148||None|Vigan.09G029200.01)Vigna nepalensis
3301868GA522303.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3153||None|Vigan.09G029200.01)Vigna nepalensis
3301880CA492161.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3165||None|Vigan.09G029200.01)Vigna nepalensis
3301883CT472126.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3168||None|Vigan.09G029200.01)Vigna nepalensis
3301947GA532011.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3232||None|Vigan.09G029200.01)Vigna nepalensis
3301967GT491952.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3252||None|Vigan.09G029200.01)Vigna nepalensis
3301987TA511960.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3272||None|Vigan.09G029200.01)Vigna nepalensis
3302059AG502070.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3344||None|Vigan.09G029200.01)Vigna nepalensis
3302142AG602362.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3427||None|Vigan.09G029200.01)Vigna nepalensis
3302193AG652937.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3478||None|Vigan.09G029200.01)Vigna nepalensis
3302196AG632937.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3481||None|Vigan.09G029200.01)Vigna nepalensis
3302291GA592313.771.00INTRON(|||None|Vigan.09G029300.01), SPLICE_SITE_REGION(|||None|Vigan.09G029300.01), UPSTREAM(|3576||None|Vigan.09G029200.01)Vigna nepalensis
3302307TC602472.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3592||None|Vigan.09G029200.01)Vigna nepalensis
3302399GA572244.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3684||None|Vigan.09G029200.01)Vigna nepalensis
3302488AT662642.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3773||None|Vigan.09G029200.01)Vigna nepalensis
3302649AT752896.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3934||None|Vigan.09G029200.01)Vigna nepalensis
3302676GA742849.770.99INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3961||None|Vigan.09G029200.01)Vigna nepalensis
3302692GA652613.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3977||None|Vigan.09G029200.01)Vigna nepalensis
3302714TA612364.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|3999||None|Vigan.09G029200.01)Vigna nepalensis
3302757GA602362.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4042||None|Vigan.09G029200.01)Vigna nepalensis
3302827CT732942.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4112||None|Vigan.09G029200.01)Vigna nepalensis
3302843CT692847.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4128||None|Vigan.09G029200.01)Vigna nepalensis
3303011AG522164.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4296||None|Vigan.09G029200.01)Vigna nepalensis
3303072AG572366.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4357||None|Vigan.09G029200.01)Vigna nepalensis
3303149AC622534.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4434||None|Vigan.09G029200.01)Vigna nepalensis
3303168AG602532.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4453||None|Vigan.09G029200.01)Vigna nepalensis
3303179CT602514.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4464||None|Vigan.09G029200.01)Vigna nepalensis
3303191CT592461.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4476||None|Vigan.09G029200.01)Vigna nepalensis
3303244CT622404.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4529||None|Vigan.09G029200.01)Vigna nepalensis
3303337GC632637.771.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4622||None|Vigan.09G029200.01)Vigna nepalensis
3303399AG642653.771.00DOWNSTREAM(|4987||None|Vigan.09G029400.01), SPLICE_SITE_REGION(|||None|Vigan.09G029300.01), SYNONYMOUS_CODING(SILENT|gcT/gcC|A76|None|Vigan.09G029300.01), UPSTREAM(|4684||None|Vigan.09G029200.01)Vigna nepalensis
3303768TC441680.771.00DOWNSTREAM(|4618||None|Vigan.09G029400.01), UTR_5_PRIME(|142||None|Vigan.09G029300.01)Vigna nepalensis

Indels

PositionRef.Alt.DepthScoreFreq. Of Alt.EffectSpecies
3300053AAACACAAGCTCACTTCATCAAATCTTCAGAGATTCATTCTAGGCACC483213.731.00UPSTREAM(|1339||None|Vigan.09G029200.01), UTR_3_PRIME(|39||None|Vigan.09G029300.01)Vigna nepalensis
3300642AATT391722.731.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|1928||None|Vigan.09G029200.01)Vigna nepalensis
3300859GGC492225.731.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2145||None|Vigan.09G029200.01)Vigna nepalensis
3301591AAAAACAAGCTAC572859.731.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2877||None|Vigan.09G029200.01)Vigna nepalensis
3303315TAT662012.731.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|4601||None|Vigan.09G029200.01)Vigna nepalensis
3303707GGAAGAG391703.731.00DOWNSTREAM(|4678||None|Vigan.09G029400.01), UPSTREAM(|4993||None|Vigan.09G029200.01), UTR_5_PRIME(|82||None|Vigan.09G029300.01)Vigna nepalensis

SSR-associated indels

PositionRef.Alt.DepthScoreFreq. Of Alt.EffectSpecies
3300772(AT)14(AT)5401754.731.00INTRON(|||None|Vigan.09G029300.01), UPSTREAM(|2058||None|Vigan.09G029200.01)Vigna nepalensis