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Mutant Information

Mutant Name	N1-169-8 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download N1-169-8 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Very Low (Below 24%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 8

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr3	30842059	T-A	Homo	INTERGENIC
SBS	Chr3	34180630	C-T	HET	INTERGENIC
SBS	Chr3	34180653	G-C	HET	INTERGENIC
SBS	Chr3	34180679	A-G	HET	INTERGENIC
SBS	Chr4	30362164	C-A	Homo	UTR_3_PRIME
SBS	Chr5	27454544	G-A	Homo	INTRON
SBS	Chr8	506537	C-T	Homo	INTERGENIC
SBS	Chr11	25681971	G-A	HET	INTRON

Deletions: 14

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	1470144	1470145	1
Deletion	Chr3	9546101	9546166	65	LOC_Os03g17164
Deletion	Chr5	18626411	18626412	1
Deletion	Chr4	19901533	19901540	7	LOC_Os04g32940
Deletion	Chr12	20094883	20094887	4	LOC_Os12g33220
Deletion	Chr6	20976938	20976948	10
Deletion	Chr6	22278456	22278457	1
Deletion	Chr5	23117705	23117715	10
Deletion	Chr12	23572740	23572741	1
Deletion	Chr8	25616375	25616556	181
Deletion	Chr2	32041323	32041331	8
Deletion	Chr3	34179264	34179265	1
Deletion	Chr1	39117699	39117705	6
Deletion	Chr1	43113249	43113257	8	LOC_Os01g74440

Insertions: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr8	27506747	27506747	1

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	4042475	4124562
Inversion	Chr12	20862332	22212773	LOC_Os12g34440
Inversion	Chr1	23159766	24946752	LOC_Os01g43550
Inversion	Chr1	32933790	33211643	LOC_Os01g57480
Inversion	Chr1	33005449	33211643	2

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr2	7261134	Chr1	24857951	LOC_Os02g13540
Translocation	Chr2	7261374	Chr1	24857940
Translocation	Chr9	22104278	Chr4	25255356	LOC_Os04g42700
Translocation	Chr9	22393238	Chr4	25255377	LOC_Os04g42700
Translocation	Chr3	34145096	Chr1	32933786	LOC_Os03g60030
Translocation	Chr3	34177151	Chr1	33005460	LOC_Os01g57110

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr3	36136483	36140436	3953