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Mutant Information

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

Mutant Name	FN-39 [Download]
Generation	M2-SOS
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-39 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	Chr1	12766663	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os01g22720
SBS	Chr3	16078521	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr3	31983854	A-T	Homo	INTERGENIC
SBS	Chr7	23418422	T-A	Homo	INTERGENIC
SBS	Chr9	3787531	A-G	Homo	INTERGENIC
SBS	Chr9	16964019	A-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os09g27900
SBS	Chr11	10156519	G-A	Homo	INTERGENIC
SBS	Chr11	22538288	C-T	Homo	UTR_3_PRIME

Deletions: 8

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	4466001	4920000	454000	68
Deletion	Chr11	5168112	5168121	9
Deletion	Chr4	8054753	8054758	5
Deletion	Chr3	9699858	9699862	4	LOC_Os03g17432
Deletion	Chr2	11806926	11806930	4
Deletion	Chr12	22541830	22541836	6
Deletion	Chr11	25676238	25676244	6	LOC_Os11g42640
Deletion	Chr1	34531852	34531857	5	LOC_Os01g59690

No Insertion

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	16443750	26939138

No Translocation