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Mutant Information

Mutant Name	FN3964-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN3964-S Alignment File
Seed Availability	Yes [Order Seeds]

Variant Information

Single base substitutions: 39

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 5242031 C-T Hetero INTERGENIC
SBS Chr1 39476415 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake01g425700
SBS Chr3 10831885 C-A Hetero INTERGENIC
SBS Chr3 13810121 G-A Hetero INTERGENIC
SBS Chr3 14878083 G-T Hetero INTERGENIC
SBS Chr3 19105757 G-C Hetero INTERGENIC
SBS Chr3 33798472 G-T Hetero INTERGENIC
SBS Chr3 33798473 A-T Hetero INTERGENIC
SBS Chr4 8770803 A-T Hetero INTERGENIC
SBS Chr4 8770804 G-T Hetero INTERGENIC
SBS Chr4 9910038 G-A Hetero INTERGENIC
SBS Chr4 14961693 T-G Hetero INTERGENIC
SBS Chr4 15505559 T-C Hetero INTERGENIC
SBS Chr4 19234856 G-A Hetero INTERGENIC
SBS Chr4 24593996 T-C Hetero NON_SYNONYMOUS_CODING OsKitaake04g161200
SBS Chr4 29760604 G-T Hetero INTERGENIC
SBS Chr5 3866460 G-T Hetero INTERGENIC
SBS Chr5 3866461 G-T Hetero INTERGENIC
SBS Chr5 4891912 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake05g055000
SBS Chr5 11469517 T-C Hetero INTERGENIC
SBS Chr6 4413724 G-C Homo NON_SYNONYMOUS_CODING OsKitaake06g060600
SBS Chr6 9481105 G-A Hetero INTERGENIC
SBS Chr6 15992746 A-G Hetero INTERGENIC
SBS Chr6 22379141 A-T Hetero INTERGENIC
SBS Chr7 9642588 G-T Homo INTERGENIC
SBS Chr7 11287610 G-A Homo INTRON
SBS Chr8 7238455 G-A Hetero INTERGENIC
SBS Chr8 23486111 T-A Homo INTERGENIC
SBS Chr8 26435375 C-T Hetero INTERGENIC
SBS Chr8 27283200 T-A Homo INTERGENIC
SBS Chr8 28762528 A-G Hetero INTRON
SBS Chr8 28789812 C-T Homo INTRON
SBS Chr9 3565131 C-T Hetero INTRON
SBS Chr9 7557766 A-T Hetero INTERGENIC
SBS Chr10 7393392 G-T Hetero INTERGENIC
SBS Chr10 13199583 G-A Hetero INTERGENIC
SBS Chr10 15909368 G-C Hetero INTERGENIC
SBS Chr10 15952142 C-T Hetero INTERGENIC
SBS Chr11 14323913 A-G Homo INTERGENIC

Deletions: 19

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr2 381581 381597 16 OsKitaake02g005700
Deletion Chr3 1668977 1668980 3
Deletion Chr4 2764662 2764665 3
Deletion Chr11 3486558 3486564 6
Deletion Chr8 6712423 6712440 17
Deletion Chr10 7561886 7561893 7
Deletion Chr11 8434684 8434689 5 OsKitaake11g091900
Deletion Chr4 9182410 9182413 3
Deletion Chr11 9311186 9311194 8
Deletion Chr6 13224472 13224475 3
Deletion Chr7 13724001 13730000 5999
Deletion Chr4 17529369 17529372 3 OsKitaake04g087300
Deletion Chr10 18458625 18458634 9
Deletion Chr2 21545006 21545015 9
Deletion Chr2 23961902 23961918 16 OsKitaake02g235300
Deletion Chr8 27878684 27878685 1
Deletion Chr8 27896811 27896813 2
Deletion Chr1 28424589 28424605 16
Deletion Chr1 30721900 30721913 13

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr7 1896097 1896100 2
Insertion Chr10 3438238 3438241 2
Insertion Chr10 17824538 17824541 2

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 9077256 9126416

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr5 3682271 Chr4 8912320
Translocation Chr5 3682287 Chr4 17177399
Translocation Chr12 26596384 Chr1 37329470
Translocation Chr12 26596390 Chr1 37327923 OsKitaake01g398300
Translocation Chr8 29213061 Chr4 17209090 OsKitaake08g254200
Translocation Chr8 29213099 Chr4 17177437 OsKitaake08g254200

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	5242031	C-T	Hetero	INTERGENIC
SBS	Chr1	39476415	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g425700
SBS	Chr3	10831885	C-A	Hetero	INTERGENIC
SBS	Chr3	13810121	G-A	Hetero	INTERGENIC
SBS	Chr3	14878083	G-T	Hetero	INTERGENIC
SBS	Chr3	19105757	G-C	Hetero	INTERGENIC
SBS	Chr3	33798472	G-T	Hetero	INTERGENIC
SBS	Chr3	33798473	A-T	Hetero	INTERGENIC
SBS	Chr4	8770803	A-T	Hetero	INTERGENIC
SBS	Chr4	8770804	G-T	Hetero	INTERGENIC
SBS	Chr4	9910038	G-A	Hetero	INTERGENIC
SBS	Chr4	14961693	T-G	Hetero	INTERGENIC
SBS	Chr4	15505559	T-C	Hetero	INTERGENIC
SBS	Chr4	19234856	G-A	Hetero	INTERGENIC
SBS	Chr4	24593996	T-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g161200
SBS	Chr4	29760604	G-T	Hetero	INTERGENIC
SBS	Chr5	3866460	G-T	Hetero	INTERGENIC
SBS	Chr5	3866461	G-T	Hetero	INTERGENIC
SBS	Chr5	4891912	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g055000
SBS	Chr5	11469517	T-C	Hetero	INTERGENIC
SBS	Chr6	4413724	G-C	Homo	NON_SYNONYMOUS_CODING	OsKitaake06g060600
SBS	Chr6	9481105	G-A	Hetero	INTERGENIC
SBS	Chr6	15992746	A-G	Hetero	INTERGENIC
SBS	Chr6	22379141	A-T	Hetero	INTERGENIC
SBS	Chr7	9642588	G-T	Homo	INTERGENIC
SBS	Chr7	11287610	G-A	Homo	INTRON
SBS	Chr8	7238455	G-A	Hetero	INTERGENIC
SBS	Chr8	23486111	T-A	Homo	INTERGENIC
SBS	Chr8	26435375	C-T	Hetero	INTERGENIC
SBS	Chr8	27283200	T-A	Homo	INTERGENIC
SBS	Chr8	28762528	A-G	Hetero	INTRON
SBS	Chr8	28789812	C-T	Homo	INTRON
SBS	Chr9	3565131	C-T	Hetero	INTRON
SBS	Chr9	7557766	A-T	Hetero	INTERGENIC
SBS	Chr10	7393392	G-T	Hetero	INTERGENIC
SBS	Chr10	13199583	G-A	Hetero	INTERGENIC
SBS	Chr10	15909368	G-C	Hetero	INTERGENIC
SBS	Chr10	15952142	C-T	Hetero	INTERGENIC
SBS	Chr11	14323913	A-G	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr2	381581	381597	16	OsKitaake02g005700
Deletion	Chr3	1668977	1668980	3
Deletion	Chr4	2764662	2764665	3
Deletion	Chr11	3486558	3486564	6
Deletion	Chr8	6712423	6712440	17
Deletion	Chr10	7561886	7561893	7
Deletion	Chr11	8434684	8434689	5	OsKitaake11g091900
Deletion	Chr4	9182410	9182413	3
Deletion	Chr11	9311186	9311194	8
Deletion	Chr6	13224472	13224475	3
Deletion	Chr7	13724001	13730000	5999
Deletion	Chr4	17529369	17529372	3	OsKitaake04g087300
Deletion	Chr10	18458625	18458634	9
Deletion	Chr2	21545006	21545015	9
Deletion	Chr2	23961902	23961918	16	OsKitaake02g235300
Deletion	Chr8	27878684	27878685	1
Deletion	Chr8	27896811	27896813	2
Deletion	Chr1	28424589	28424605	16
Deletion	Chr1	30721900	30721913	13

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	9077256	9126416

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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