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Mutant Information

Mutant Name	FN1642-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1642-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:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 23

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 22216770 A-G Hetero INTERGENIC
SBS Chr1 22276392 C-A Hetero SYNONYMOUS_CODING
SBS Chr1 24671073 T-A Hetero INTERGENIC
SBS Chr1 30230555 A-T Homo UTR_3_PRIME
SBS Chr1 37742912 A-T Hetero UTR_5_PRIME
SBS Chr2 15562853 G-C Hetero INTERGENIC
SBS Chr2 17841529 C-T Hetero INTERGENIC
SBS Chr2 18272537 C-T Hetero INTERGENIC
SBS Chr4 13710664 C-T Hetero INTERGENIC
SBS Chr5 5659698 C-T Hetero INTRON
SBS Chr6 7232963 A-T Homo INTERGENIC
SBS Chr6 23542810 G-T Hetero INTERGENIC
SBS Chr7 2040729 C-A Homo INTERGENIC
SBS Chr7 14951118 C-T Hetero INTERGENIC
SBS Chr7 23963437 C-T Homo INTRON
SBS Chr8 2157082 G-T Homo NON_SYNONYMOUS_CODING OsKitaake08g025700
SBS Chr8 20481889 C-T Hetero INTERGENIC
SBS Chr9 1367199 G-A Homo INTERGENIC
SBS Chr9 6397611 C-A Homo INTERGENIC
SBS Chr9 12726477 C-G Hetero INTERGENIC
SBS Chr11 10999810 G-C Homo INTERGENIC
SBS Chr11 28262722 C-T Hetero INTERGENIC
SBS Chr12 23327686 G-A Hetero INTERGENIC

Deletions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 5942001 5961000 18999 2
Deletion Chr9 7928315 7928316 1
Deletion Chr1 10139907 10139913 6
Deletion Chr11 10501277 10501280 3
Deletion Chr6 12170150 12170151 1
Deletion Chr3 16243425 16243429 4
Deletion Chr4 31525921 31525923 2

Insertions: 1

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr10 2135458 2135461 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr9 15982925 16269246
Inversion Chr9 15986065 16269248 OsKitaake09g114200

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr7 15809887 Chr6 14780691 OsKitaake06g149500
Translocation Chr7 15813360 Chr6 14780673 OsKitaake06g149500

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	22216770	A-G	Hetero	INTERGENIC
SBS	Chr1	22276392	C-A	Hetero	SYNONYMOUS_CODING
SBS	Chr1	24671073	T-A	Hetero	INTERGENIC
SBS	Chr1	30230555	A-T	Homo	UTR_3_PRIME
SBS	Chr1	37742912	A-T	Hetero	UTR_5_PRIME
SBS	Chr2	15562853	G-C	Hetero	INTERGENIC
SBS	Chr2	17841529	C-T	Hetero	INTERGENIC
SBS	Chr2	18272537	C-T	Hetero	INTERGENIC
SBS	Chr4	13710664	C-T	Hetero	INTERGENIC
SBS	Chr5	5659698	C-T	Hetero	INTRON
SBS	Chr6	7232963	A-T	Homo	INTERGENIC
SBS	Chr6	23542810	G-T	Hetero	INTERGENIC
SBS	Chr7	2040729	C-A	Homo	INTERGENIC
SBS	Chr7	14951118	C-T	Hetero	INTERGENIC
SBS	Chr7	23963437	C-T	Homo	INTRON
SBS	Chr8	2157082	G-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake08g025700
SBS	Chr8	20481889	C-T	Hetero	INTERGENIC
SBS	Chr9	1367199	G-A	Homo	INTERGENIC
SBS	Chr9	6397611	C-A	Homo	INTERGENIC
SBS	Chr9	12726477	C-G	Hetero	INTERGENIC
SBS	Chr11	10999810	G-C	Homo	INTERGENIC
SBS	Chr11	28262722	C-T	Hetero	INTERGENIC
SBS	Chr12	23327686	G-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	5942001	5961000	18999	2
Deletion	Chr9	7928315	7928316	1
Deletion	Chr1	10139907	10139913	6
Deletion	Chr11	10501277	10501280	3
Deletion	Chr6	12170150	12170151	1
Deletion	Chr3	16243425	16243429	4
Deletion	Chr4	31525921	31525923	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	15982925	16269246
Inversion	Chr9	15986065	16269248	OsKitaake09g114200

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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