Search Nipponbare

Mutant Information

Mutant Name	N1-169-4 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download N1-169-4 Alignment File
Seed Availability	No
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 6

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	28624542	A-T	HET	INTERGENIC
SBS	Chr11	25681971	G-A	Homo	INTRON
SBS	Chr3	30842059	T-A	Homo	INTERGENIC
SBS	Chr3	34180679	A-G	HET	INTERGENIC
SBS	Chr4	30362164	C-A	Homo	UTR_3_PRIME
SBS	Chr5	27454544	G-A	Homo	INTRON

Deletions: 9

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	19901533	19901540	7	LOC_Os04g32940
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	Chr3	28492066	28492067	1
Deletion	Chr2	32041323	32041331	8
Deletion	Chr3	34177001	34186000	9000

Insertions: 1

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

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	20862332	22212773	LOC_Os12g34440
Inversion	Chr1	32933790	33211643	LOC_Os01g57480
Inversion	Chr1	33005449	33211643	2

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	22393238	Chr4	25255377	LOC_Os04g42700
Translocation	Chr3	34145119	Chr1	32933773	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