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Mutant Information

SOS indicates the sequenced line is sterile and seeds from siblings are available.

Mutant Name	FN1381-S [Download]
Generation	M2-SOS
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1381-S 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: 22

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13152053	A-G	HET	INTERGENIC
SBS	Chr1	31230063	T-G	HOMO	INTERGENIC
SBS	Chr10	3036209	C-A	HET	INTERGENIC
SBS	Chr10	7350163	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g13570
SBS	Chr11	9258289	T-A	HOMO	INTERGENIC
SBS	Chr11	9258296	C-A	HOMO	INTERGENIC
SBS	Chr12	24487060	G-A	HET	SYNONYMOUS_CODING
SBS	Chr12	26806715	A-G	HOMO	START_GAINED	LOC_Os12g43165
SBS	Chr12	6557543	A-G	HOMO	INTERGENIC
SBS	Chr3	13286590	G-T	HOMO	INTERGENIC
SBS	Chr3	14353038	C-T	HOMO	INTERGENIC
SBS	Chr3	34355514	G-A	HOMO	INTERGENIC
SBS	Chr4	19422479	A-G	HOMO	INTERGENIC
SBS	Chr4	22642831	C-T	HOMO	INTERGENIC
SBS	Chr4	33511067	G-A	HOMO	INTERGENIC
SBS	Chr4	7420905	C-T	HOMO	INTRON
SBS	Chr5	18880933	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os05g32380
SBS	Chr7	24374701	A-G	HET	INTERGENIC
SBS	Chr8	10652256	C-T	HET	INTERGENIC
SBS	Chr8	11868339	T-A	HET	INTERGENIC
SBS	Chr8	16262036	G-A	HET	INTERGENIC
SBS	Chr9	8785140	T-A	HOMO	INTERGENIC

Deletions: 13

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	3038990	3038992	2
Deletion	Chr12	7590026	7590027	1
Deletion	Chr8	9918617	9918618	1	LOC_Os08g16255
Deletion	Chr8	11536767	11536768	1
Deletion	Chr9	13069207	13069208	1
Deletion	Chr8	14737783	14737784	1
Deletion	Chr1	17214760	17214762	2
Deletion	Chr4	19462554	19462564	10
Deletion	Chr2	19705195	19705206	11
Deletion	Chr3	26302096	26302107	11
Deletion	Chr12	26671953	26671954	1
Deletion	Chr3	26725857	26725858	1
Deletion	Chr1	38738600	38738607	7	LOC_Os01g66690

Insertions: 7

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	11753586	11753586	1
Insertion	Chr1	12883923	12883924	2
Insertion	Chr3	5772989	5772991	3
Insertion	Chr5	18667253	18667253	1
Insertion	Chr5	5272886	5272887	2
Insertion	Chr6	20677302	20677303	2
Insertion	Chr7	2650326	2650327	2

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	19463391	19757834

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr6	29504966	Chr3	25385133	LOC_Os06g48750

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