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Mutant Information

Mutant Name	FN-4 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-4 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Low (Between 25% and 74%) TO:0000639 (Seed fertility) = Low (Between 25% and 74%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 9

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr11	14194469	C-A	Homo	INTERGENIC
SBS	Chr11	20353696	C-T	Homo	INTERGENIC
SBS	Chr12	13429451	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os12g23660
SBS	Chr12	24357293	C-G	Homo	INTERGENIC
SBS	Chr12	24947361	G-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os12g40279
SBS	Chr4	2841697	A-G	Homo	INTERGENIC
SBS	Chr4	4979583	G-A	HET	INTRON
SBS	Chr5	6820653	A-T	Homo	INTERGENIC
SBS	Chr8	17213482	A-G	Homo	INTERGENIC

Deletions: 17

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	576306	576309	3
Deletion	Chr4	4980186	4980187	1	LOC_Os04g09360
Deletion	Chr1	5511174	5511177	3	LOC_Os01g10450
Deletion	Chr10	9320063	9320065	2
Deletion	Chr11	9451403	9451404	1
Deletion	Chr2	11589164	11589166	2
Deletion	Chr11	13549002	13549011	9
Deletion	Chr3	16179461	16179470	9
Deletion	Chr2	17270066	17270092	26
Deletion	Chr12	17981599	17981600	1
Deletion	Chr4	18638166	18638167	1
Deletion	Chr8	21342872	21342877	5
Deletion	Chr1	22748001	22855000	107000	16
Deletion	Chr6	23288961	23288962	1
Deletion	Chr5	26243666	26243690	24
Deletion	Chr2	34642393	34642403	10
Deletion	Chr1	35191370	35191371	1

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr3	7279858	7279858	1
Insertion	Chr4	22388098	22388098	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	5439535	8436014	2
Inversion	Chr2	6938220	12334028

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	1242386	Chr1	443224	2
Translocation	Chr12	1243261	Chr1	443215	2