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Mutant Information

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

Mutant Name	FN-60 [Download]
Generation	M2-SOS
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-60 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

Variant Information

Single base substitutions: 22

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 17631077 A-G Homo INTRON
SBS Chr1 27140369 G-T Homo INTERGENIC
SBS Chr2 12374155 G-A Hetero INTERGENIC
SBS Chr5 1388429 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake05g017200
SBS Chr5 19980435 A-T Hetero INTRON
SBS Chr6 15881796 G-A Hetero SYNONYMOUS_CODING
SBS Chr6 23975457 G-A Homo INTERGENIC
SBS Chr7 11035344 T-G Hetero INTERGENIC
SBS Chr7 12733526 G-C Hetero INTERGENIC
SBS Chr7 14383279 A-G Hetero INTERGENIC
SBS Chr8 10281993 A-G Hetero INTERGENIC
SBS Chr8 12703597 G-C Hetero INTERGENIC
SBS Chr9 862731 T-A Hetero INTERGENIC
SBS Chr9 5935457 G-A Hetero INTERGENIC
SBS Chr9 18497412 G-A Hetero INTERGENIC
SBS Chr11 1192272 C-A Hetero INTERGENIC
SBS Chr11 2155864 A-T Hetero INTRON
SBS Chr11 13563294 T-A Hetero INTERGENIC
SBS Chr12 2663584 C-T Homo INTRON
SBS Chr12 6679979 C-T Hetero INTERGENIC
SBS Chr12 23260015 T-A Hetero INTERGENIC
SBS Chr12 26597264 A-G Homo INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 76614 76615 1
Deletion Chr5 176980 176983 3
Deletion Chr3 4783083 4783088 5
Deletion Chr9 5114288 5114434 146
Deletion Chr10 5179001 5803000 623999 27
Deletion Chr12 7574989 7575144 155
Deletion Chr10 11829471 11829472 1
Deletion Chr7 13515001 13657000 141999 3
Deletion Chr6 16664145 16664146 1
Deletion Chr2 16718468 16718838 370
Deletion Chr11 18093947 18094315 368
Deletion Chr12 18357941 18358109 168
Deletion Chr1 18381001 18390000 8999 2
Deletion Chr10 19787027 19787028 1
Deletion Chr6 27386854 27386860 6

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 5822839 5822841 1
Insertion Chr8 18237631 18237634 2
Insertion Chr2 3907320 3907323 2 OsKitaake02g056100
Insertion Chr2 9425865 9425867 1
Insertion Chr2 28849671 28849673 1

Inversions: 3

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 10102694 10254298
Inversion Chr10 20956245 21153563 OsKitaake10g161900
Inversion Chr10 20956247 21153570 OsKitaake10g161900

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr7 1271860 Chr3 6191253 OsKitaake07g018500

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	17631077	A-G	Homo	INTRON
SBS	Chr1	27140369	G-T	Homo	INTERGENIC
SBS	Chr2	12374155	G-A	Hetero	INTERGENIC
SBS	Chr5	1388429	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g017200
SBS	Chr5	19980435	A-T	Hetero	INTRON
SBS	Chr6	15881796	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr6	23975457	G-A	Homo	INTERGENIC
SBS	Chr7	11035344	T-G	Hetero	INTERGENIC
SBS	Chr7	12733526	G-C	Hetero	INTERGENIC
SBS	Chr7	14383279	A-G	Hetero	INTERGENIC
SBS	Chr8	10281993	A-G	Hetero	INTERGENIC
SBS	Chr8	12703597	G-C	Hetero	INTERGENIC
SBS	Chr9	862731	T-A	Hetero	INTERGENIC
SBS	Chr9	5935457	G-A	Hetero	INTERGENIC
SBS	Chr9	18497412	G-A	Hetero	INTERGENIC
SBS	Chr11	1192272	C-A	Hetero	INTERGENIC
SBS	Chr11	2155864	A-T	Hetero	INTRON
SBS	Chr11	13563294	T-A	Hetero	INTERGENIC
SBS	Chr12	2663584	C-T	Homo	INTRON
SBS	Chr12	6679979	C-T	Hetero	INTERGENIC
SBS	Chr12	23260015	T-A	Hetero	INTERGENIC
SBS	Chr12	26597264	A-G	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	76614	76615	1
Deletion	Chr5	176980	176983	3
Deletion	Chr3	4783083	4783088	5
Deletion	Chr9	5114288	5114434	146
Deletion	Chr10	5179001	5803000	623999	27
Deletion	Chr12	7574989	7575144	155
Deletion	Chr10	11829471	11829472	1
Deletion	Chr7	13515001	13657000	141999	3
Deletion	Chr6	16664145	16664146	1
Deletion	Chr2	16718468	16718838	370
Deletion	Chr11	18093947	18094315	368
Deletion	Chr12	18357941	18358109	168
Deletion	Chr1	18381001	18390000	8999	2
Deletion	Chr10	19787027	19787028	1
Deletion	Chr6	27386854	27386860	6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	10102694	10254298
Inversion	Chr10	20956245	21153563	OsKitaake10g161900
Inversion	Chr10	20956247	21153570	OsKitaake10g161900

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Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes