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Mutant Information

Mutant Name	FN1446-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1446-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: 45

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 13786681 C-T Homo INTERGENIC
SBS Chr1 14270410 A-G Hetero INTERGENIC
SBS Chr1 16863521 A-C Homo INTERGENIC
SBS Chr2 17429612 C-G Hetero INTERGENIC
SBS Chr2 36013503 C-A Hetero INTRON
SBS Chr3 2182482 A-G Homo INTERGENIC
SBS Chr3 15443980 C-T Hetero INTERGENIC
SBS Chr3 16403385 G-A Hetero INTERGENIC
SBS Chr3 29074404 G-A Hetero INTERGENIC
SBS Chr4 11416866 C-A Hetero INTERGENIC
SBS Chr4 18532266 T-C Hetero INTERGENIC
SBS Chr4 21013340 T-A Hetero INTERGENIC
SBS Chr4 34140638 C-T Hetero INTRON
SBS Chr5 7214462 C-T Hetero INTRON
SBS Chr5 9688125 G-T Hetero INTERGENIC
SBS Chr5 16858753 C-T Hetero INTERGENIC
SBS Chr5 19680355 C-A Hetero INTERGENIC
SBS Chr5 21870413 C-T Hetero INTERGENIC
SBS Chr6 297113 A-G Hetero INTRON
SBS Chr6 5608333 C-T Hetero INTRON
SBS Chr6 18647809 C-A Hetero INTERGENIC
SBS Chr6 23032674 C-T Hetero INTERGENIC
SBS Chr6 29813204 C-G Homo SYNONYMOUS_CODING
SBS Chr7 2587344 G-A Hetero SYNONYMOUS_CODING
SBS Chr7 9460317 C-T Homo INTERGENIC
SBS Chr7 11380234 C-T Homo INTERGENIC
SBS Chr8 16875078 C-T Hetero INTERGENIC
SBS Chr8 18867972 G-A Homo INTERGENIC
SBS Chr9 7694752 G-A Hetero INTERGENIC
SBS Chr9 16696039 A-G Homo SPLICE_SITE_REGION
SBS Chr9 17718893 G-T Homo INTERGENIC
SBS Chr10 572195 C-A Hetero INTERGENIC
SBS Chr10 6832944 C-T Hetero INTERGENIC
SBS Chr10 20099086 T-G Hetero INTERGENIC
SBS Chr11 5468396 T-C Homo INTERGENIC
SBS Chr11 13692904 C-T Hetero INTERGENIC
SBS Chr11 15462960 C-T Hetero INTERGENIC
SBS Chr11 29341980 G-T Hetero INTERGENIC
SBS Chr12 3966100 C-T Homo SYNONYMOUS_CODING
SBS Chr12 6355413 A-G Homo NON_SYNONYMOUS_CODING OsKitaake12g073400
SBS Chr12 7800388 C-G Hetero INTERGENIC
SBS Chr12 12291628 T-A Hetero INTERGENIC
SBS Chr12 19509598 A-G Hetero INTERGENIC
SBS Chr12 21885159 C-T Hetero INTERGENIC
SBS Chr12 25631246 A-T Hetero INTERGENIC

Deletions: 23

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 21148 21149 1
Deletion Chr10 290001 627000 336999 21
Deletion Chr3 2293352 2293353 1
Deletion Chr5 3402001 3416000 13999 2
Deletion Chr12 3836593 3836597 4 OsKitaake12g053000
Deletion Chr3 4160902 4160914 12
Deletion Chr8 5428001 5444000 15999 3
Deletion Chr12 5786001 5799000 12999 2
Deletion Chr10 9961001 10055000 93999 OsKitaake10g058500
Deletion Chr2 10507001 10516000 8999 OsKitaake02g124600
Deletion Chr12 11446001 11462000 15999
Deletion Chr2 12749001 12761000 11999 3
Deletion Chr8 13236001 13260000 23999
Deletion Chr9 14139001 14161000 21999 OsKitaake09g095100
Deletion Chr1 14680001 14688000 7999 OsKitaake01g166200
Deletion Chr1 16667001 16683000 15999 OsKitaake01g177400
Deletion Chr5 16786001 16805000 18999 OsKitaake05g128600
Deletion Chr9 17131461 17131470 9
Deletion Chr12 21253306 21253416 110
Deletion Chr1 23886382 23886383 1
Deletion Chr3 25114001 25126000 11999 OsKitaake03g266200
Deletion Chr6 25260001 25274000 13999 OsKitaake06g223800
Deletion Chr2 28307994 28307996 2

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 8660438 8660441 2
Insertion Chr1 34919097 34919100 2
Insertion Chr6 8324418 8324422 3
Insertion Chr9 12278081 12278084 2
Insertion Chr8 13431372 13431374 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 22917219 22952161 2
Inversion Chr4 22917231 22952162 2

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 8653903 Chr1 17221950 OsKitaake10g053166

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13786681	C-T	Homo	INTERGENIC
SBS	Chr1	14270410	A-G	Hetero	INTERGENIC
SBS	Chr1	16863521	A-C	Homo	INTERGENIC
SBS	Chr2	17429612	C-G	Hetero	INTERGENIC
SBS	Chr2	36013503	C-A	Hetero	INTRON
SBS	Chr3	2182482	A-G	Homo	INTERGENIC
SBS	Chr3	15443980	C-T	Hetero	INTERGENIC
SBS	Chr3	16403385	G-A	Hetero	INTERGENIC
SBS	Chr3	29074404	G-A	Hetero	INTERGENIC
SBS	Chr4	11416866	C-A	Hetero	INTERGENIC
SBS	Chr4	18532266	T-C	Hetero	INTERGENIC
SBS	Chr4	21013340	T-A	Hetero	INTERGENIC
SBS	Chr4	34140638	C-T	Hetero	INTRON
SBS	Chr5	7214462	C-T	Hetero	INTRON
SBS	Chr5	9688125	G-T	Hetero	INTERGENIC
SBS	Chr5	16858753	C-T	Hetero	INTERGENIC
SBS	Chr5	19680355	C-A	Hetero	INTERGENIC
SBS	Chr5	21870413	C-T	Hetero	INTERGENIC
SBS	Chr6	297113	A-G	Hetero	INTRON
SBS	Chr6	5608333	C-T	Hetero	INTRON
SBS	Chr6	18647809	C-A	Hetero	INTERGENIC
SBS	Chr6	23032674	C-T	Hetero	INTERGENIC
SBS	Chr6	29813204	C-G	Homo	SYNONYMOUS_CODING
SBS	Chr7	2587344	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr7	9460317	C-T	Homo	INTERGENIC
SBS	Chr7	11380234	C-T	Homo	INTERGENIC
SBS	Chr8	16875078	C-T	Hetero	INTERGENIC
SBS	Chr8	18867972	G-A	Homo	INTERGENIC
SBS	Chr9	7694752	G-A	Hetero	INTERGENIC
SBS	Chr9	16696039	A-G	Homo	SPLICE_SITE_REGION
SBS	Chr9	17718893	G-T	Homo	INTERGENIC
SBS	Chr10	572195	C-A	Hetero	INTERGENIC
SBS	Chr10	6832944	C-T	Hetero	INTERGENIC
SBS	Chr10	20099086	T-G	Hetero	INTERGENIC
SBS	Chr11	5468396	T-C	Homo	INTERGENIC
SBS	Chr11	13692904	C-T	Hetero	INTERGENIC
SBS	Chr11	15462960	C-T	Hetero	INTERGENIC
SBS	Chr11	29341980	G-T	Hetero	INTERGENIC
SBS	Chr12	3966100	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr12	6355413	A-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake12g073400
SBS	Chr12	7800388	C-G	Hetero	INTERGENIC
SBS	Chr12	12291628	T-A	Hetero	INTERGENIC
SBS	Chr12	19509598	A-G	Hetero	INTERGENIC
SBS	Chr12	21885159	C-T	Hetero	INTERGENIC
SBS	Chr12	25631246	A-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	21148	21149	1
Deletion	Chr10	290001	627000	336999	21
Deletion	Chr3	2293352	2293353	1
Deletion	Chr5	3402001	3416000	13999	2
Deletion	Chr12	3836593	3836597	4	OsKitaake12g053000
Deletion	Chr3	4160902	4160914	12
Deletion	Chr8	5428001	5444000	15999	3
Deletion	Chr12	5786001	5799000	12999	2
Deletion	Chr10	9961001	10055000	93999	OsKitaake10g058500
Deletion	Chr2	10507001	10516000	8999	OsKitaake02g124600
Deletion	Chr12	11446001	11462000	15999
Deletion	Chr2	12749001	12761000	11999	3
Deletion	Chr8	13236001	13260000	23999
Deletion	Chr9	14139001	14161000	21999	OsKitaake09g095100
Deletion	Chr1	14680001	14688000	7999	OsKitaake01g166200
Deletion	Chr1	16667001	16683000	15999	OsKitaake01g177400
Deletion	Chr5	16786001	16805000	18999	OsKitaake05g128600
Deletion	Chr9	17131461	17131470	9
Deletion	Chr12	21253306	21253416	110
Deletion	Chr1	23886382	23886383	1
Deletion	Chr3	25114001	25126000	11999	OsKitaake03g266200
Deletion	Chr6	25260001	25274000	13999	OsKitaake06g223800
Deletion	Chr2	28307994	28307996	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	22917219	22952161	2
Inversion	Chr4	22917231	22952162	2

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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