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Mutant Information

Mutant Name	N1-169-7 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download N1-169-7 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) 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	Chr6	25816286	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr3	30842059	T-A	Homo	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	HET	INTERGENIC
SBS	Chr11	25681971	G-A	HET	INTRON

Deletions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	5541093	5544328	3235
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	25104527	25104542	15
Deletion	Chr5	29375434	29375458	24
Deletion	Chr2	32041323	32041331	8
Deletion	Chr3	34177001	34186000	9000
Deletion	Chr1	39117699	39117705	6

Insertions: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr12	25900257	25900258	2

Inversions: 8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	4042446	4124568
Inversion	Chr8	4042473	4124579
Inversion	Chr2	7261134	7495409	2
Inversion	Chr2	7261477	7591188
Inversion	Chr2	7495634	7578370	2
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	7261140	Chr1	24857942	LOC_Os02g13540
Translocation	Chr2	7261388	Chr1	24857943
Translocation	Chr9	22393238	Chr4	25255377	LOC_Os04g42700
Translocation	Chr4	24368752	Chr2	7591174	LOC_Os04g41090
Translocation	Chr3	34145121	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