Variant information

Chr02:40790405 - 40795012

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

SNPs

PositionRef.Alt.DepthScoreFreq. Of Alt.EffectSpecies
40790670AG451802.771.00INTRON(|||None|Vigan.02G293900.01), UTR_3_PRIME(|879||None|Vigan.02G294000.01)Vigna nepalensis
40790772TC632523.771.00INTRON(|||None|Vigan.02G293900.01), UTR_3_PRIME(|777||None|Vigan.02G294000.01)Vigna nepalensis
40790907GA582314.771.00NON_SYNONYMOUS_CODING(MISSENSE|Ggt/Agt|G157S|None|Vigan.02G293900.01), UTR_3_PRIME(|642||None|Vigan.02G294000.01)Vigna nepalensis
40791125AC471930.771.00SPLICE_SITE_REGION(|||None|Vigan.02G293900.01), UTR_3_PRIME(|10||None|Vigan.02G293900.01), UTR_3_PRIME(|424||None|Vigan.02G294000.01)Vigna nepalensis
40791239TC431682.771.00INTRON(|||None|Vigan.02G293900.01), UTR_3_PRIME(|310||None|Vigan.02G294000.01)Vigna nepalensis
40791843AG692683.771.00INTRON(|||None|Vigan.02G294000.01), UTR_3_PRIME(|728||None|Vigan.02G293900.01)Vigna nepalensis
40792069AT652816.771.00DOWNSTREAM(|14||None|Vigan.02G293900.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792106GA622523.771.00DOWNSTREAM(|51||None|Vigan.02G293900.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792167AG682975.771.00DOWNSTREAM(|112||None|Vigan.02G293900.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792170AT643026.771.00DOWNSTREAM(|115||None|Vigan.02G293900.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792194CG582534.771.00DOWNSTREAM(|139||None|Vigan.02G293900.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792224TC562641.771.00DOWNSTREAM(|169||None|Vigan.02G293900.01), DOWNSTREAM(|4973||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792232AT542385.771.00DOWNSTREAM(|177||None|Vigan.02G293900.01), DOWNSTREAM(|4965||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792328GA572526.771.00DOWNSTREAM(|273||None|Vigan.02G293900.01), DOWNSTREAM(|4869||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792329AG562526.771.00DOWNSTREAM(|274||None|Vigan.02G293900.01), DOWNSTREAM(|4868||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792519TA471941.771.00DOWNSTREAM(|464||None|Vigan.02G293900.01), DOWNSTREAM(|4678||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792750GA241006.771.00DOWNSTREAM(|4447||None|Vigan.02G294100.01), DOWNSTREAM(|695||None|Vigan.02G293900.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792765TC20905.771.00DOWNSTREAM(|4432||None|Vigan.02G294100.01), DOWNSTREAM(|710||None|Vigan.02G293900.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793146GA602331.771.00DOWNSTREAM(|1091||None|Vigan.02G293900.01), DOWNSTREAM(|4051||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793190TA532332.771.00DOWNSTREAM(|1135||None|Vigan.02G293900.01), DOWNSTREAM(|4007||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793285TC572304.771.00DOWNSTREAM(|1230||None|Vigan.02G293900.01), DOWNSTREAM(|3912||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793314AG542245.771.00DOWNSTREAM(|1259||None|Vigan.02G293900.01), DOWNSTREAM(|3883||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793550GC501991.771.00DOWNSTREAM(|1495||None|Vigan.02G293900.01), DOWNSTREAM(|3647||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793634AT592361.771.00DOWNSTREAM(|1579||None|Vigan.02G293900.01), DOWNSTREAM(|3563||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793667GC471939.771.00DOWNSTREAM(|1612||None|Vigan.02G293900.01), DOWNSTREAM(|3530||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793746CA572234.771.00DOWNSTREAM(|1691||None|Vigan.02G293900.01), DOWNSTREAM(|3451||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793938TA552149.771.00DOWNSTREAM(|1883||None|Vigan.02G293900.01), DOWNSTREAM(|3259||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40794124AT391553.771.00DOWNSTREAM(|2069||None|Vigan.02G293900.01), DOWNSTREAM(|3073||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40794399TA512060.771.00DOWNSTREAM(|2344||None|Vigan.02G293900.01), DOWNSTREAM(|2798||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40794739GC512133.771.00DOWNSTREAM(|2458||None|Vigan.02G294100.01), DOWNSTREAM(|2684||None|Vigan.02G293900.01), UTR_5_PRIME(|64||None|Vigan.02G294000.01)Vigna nepalensis

Indels

PositionRef.Alt.DepthScoreFreq. Of Alt.EffectSpecies
40791088CCTCT552436.731.00CODON_INSERTION(|tct/TCTtct|S184SS|None|Vigan.02G293900.01), UTR_3_PRIME(|460||None|Vigan.02G294000.01)Vigna nepalensis
40791785CCTTTAATTTATT522955.731.00INTRON(|||None|Vigan.02G294000.01), UTR_3_PRIME(|671||None|Vigan.02G293900.01)Vigna nepalensis
40792045GTATG532341.731.00INTRON(|||None|Vigan.02G294000.01), UTR_3_PRIME(|931||None|Vigan.02G293900.01)Vigna nepalensis
40792217CTC562540.731.00DOWNSTREAM(|163||None|Vigan.02G293900.01), DOWNSTREAM(|4979||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40792761CTC22921.731.00DOWNSTREAM(|4435||None|Vigan.02G294100.01), DOWNSTREAM(|707||None|Vigan.02G293900.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793197CAC542384.731.00DOWNSTREAM(|1143||None|Vigan.02G293900.01), DOWNSTREAM(|3999||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793349AATA502071.731.00DOWNSTREAM(|1295||None|Vigan.02G293900.01), DOWNSTREAM(|3847||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793418GCCATAATGTG451987.731.00DOWNSTREAM(|1364||None|Vigan.02G293900.01), DOWNSTREAM(|3778||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793454ATA521869.731.00DOWNSTREAM(|1400||None|Vigan.02G293900.01), DOWNSTREAM(|3742||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis
40793494CCTTGTA462095.731.00DOWNSTREAM(|1440||None|Vigan.02G293900.01), DOWNSTREAM(|3702||None|Vigan.02G294100.01), INTRON(|||None|Vigan.02G294000.01)Vigna nepalensis

SSR-associated indels

PositionRef.Alt.DepthScoreFreq. Of Alt.EffectSpecies
40794636(TGA)8(TGA)9331364.730.97CODON_INSERTION(|tca/tcaTCA|S13SS|None|Vigan.02G294000.01), DOWNSTREAM(|2560||None|Vigan.02G294100.01), DOWNSTREAM(|2582||None|Vigan.02G293900.01)Vigna nepalensis