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Mutant Information

Mutant Name	FN1704-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1704-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 25

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 13678638 G-A Homo INTERGENIC
SBS Chr1 20380346 T-G Hetero INTERGENIC
SBS Chr1 26959412 C-A Hetero INTRON
SBS Chr1 32925940 A-T Hetero INTRON
SBS Chr2 7592653 A-G Hetero INTRON
SBS Chr2 30816436 C-T Hetero INTERGENIC
SBS Chr3 6779318 T-G Homo INTERGENIC
SBS Chr3 17336686 G-A Homo INTERGENIC
SBS Chr3 28389244 C-T Homo INTERGENIC
SBS Chr3 31937145 G-A Homo INTRON
SBS Chr3 31947488 T-G Homo SYNONYMOUS_CODING
SBS Chr4 33816528 T-A Hetero INTERGENIC
SBS Chr5 27682180 G-A Homo INTERGENIC
SBS Chr6 3405813 C-T Hetero INTERGENIC
SBS Chr6 22423341 G-A Hetero INTERGENIC
SBS Chr7 11125981 T-C Hetero INTERGENIC
SBS Chr7 18106203 G-A Homo INTRON
SBS Chr7 24845509 T-C Homo INTERGENIC
SBS Chr8 12317277 T-C Homo INTERGENIC
SBS Chr9 2574083 G-C Homo INTERGENIC
SBS Chr9 14137784 G-A Hetero INTRON
SBS Chr10 13145000 C-T Homo INTERGENIC
SBS Chr10 14378209 G-A Hetero INTERGENIC
SBS Chr11 11503379 G-A Homo INTERGENIC
SBS Chr12 3728940 A-T Hetero INTERGENIC

Deletions: 10

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 5620094 5620104 10
Deletion Chr9 8974047 8974049 2
Deletion Chr4 9916704 9916708 4
Deletion Chr12 13992001 14003000 10999
Deletion Chr11 15893001 15940000 46999 3
Deletion Chr5 19923254 19923257 3
Deletion Chr8 24378453 24378454 1
Deletion Chr2 25598364 25598374 10
Deletion Chr5 25993196 25993198 2
Deletion Chr3 29042172 29042173 1

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 25933910 25933913 2
Insertion Chr1 35079082 35079085 2
Insertion Chr1 43457355 43457357 1
Insertion Chr3 26819659 26819663 3
Insertion Chr9 19668113 19668116 2
Insertion Chr10 4427109 4427111 1

Inversions: 7

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr9 896278 1276619 OsKitaake09g005850
Inversion Chr9 907515 1276627
Inversion Chr2 1258871 1937974
Inversion Chr2 1258904 1937978
Inversion Chr6 10474156 10597840 2
Inversion Chr6 13535281 13718541
Inversion Chr6 13535745 13718549

Translocations: 3

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 896288 Chr1 39353517 OsKitaake09g005850
Translocation Chr9 907508 Chr1 36851510 OsKitaake01g392200
Translocation Chr7 952147 Chr1 37965390

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13678638	G-A	Homo	INTERGENIC
SBS	Chr1	20380346	T-G	Hetero	INTERGENIC
SBS	Chr1	26959412	C-A	Hetero	INTRON
SBS	Chr1	32925940	A-T	Hetero	INTRON
SBS	Chr2	7592653	A-G	Hetero	INTRON
SBS	Chr2	30816436	C-T	Hetero	INTERGENIC
SBS	Chr3	6779318	T-G	Homo	INTERGENIC
SBS	Chr3	17336686	G-A	Homo	INTERGENIC
SBS	Chr3	28389244	C-T	Homo	INTERGENIC
SBS	Chr3	31937145	G-A	Homo	INTRON
SBS	Chr3	31947488	T-G	Homo	SYNONYMOUS_CODING
SBS	Chr4	33816528	T-A	Hetero	INTERGENIC
SBS	Chr5	27682180	G-A	Homo	INTERGENIC
SBS	Chr6	3405813	C-T	Hetero	INTERGENIC
SBS	Chr6	22423341	G-A	Hetero	INTERGENIC
SBS	Chr7	11125981	T-C	Hetero	INTERGENIC
SBS	Chr7	18106203	G-A	Homo	INTRON
SBS	Chr7	24845509	T-C	Homo	INTERGENIC
SBS	Chr8	12317277	T-C	Homo	INTERGENIC
SBS	Chr9	2574083	G-C	Homo	INTERGENIC
SBS	Chr9	14137784	G-A	Hetero	INTRON
SBS	Chr10	13145000	C-T	Homo	INTERGENIC
SBS	Chr10	14378209	G-A	Hetero	INTERGENIC
SBS	Chr11	11503379	G-A	Homo	INTERGENIC
SBS	Chr12	3728940	A-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	5620094	5620104	10
Deletion	Chr9	8974047	8974049	2
Deletion	Chr4	9916704	9916708	4
Deletion	Chr12	13992001	14003000	10999
Deletion	Chr11	15893001	15940000	46999	3
Deletion	Chr5	19923254	19923257	3
Deletion	Chr8	24378453	24378454	1
Deletion	Chr2	25598364	25598374	10
Deletion	Chr5	25993196	25993198	2
Deletion	Chr3	29042172	29042173	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	896278	1276619	OsKitaake09g005850
Inversion	Chr9	907515	1276627
Inversion	Chr2	1258871	1937974
Inversion	Chr2	1258904	1937978
Inversion	Chr6	10474156	10597840	2
Inversion	Chr6	13535281	13718541
Inversion	Chr6	13535745	13718549

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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