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Mutant Information

Mutant Name	FN1333-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1333-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: 43

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 7536253 C-T Homo INTERGENIC
SBS Chr1 9657705 C-A Hetero INTERGENIC
SBS Chr1 24665789 A-G Homo UTR_3_PRIME
SBS Chr1 39782625 G-T Hetero INTERGENIC
SBS Chr1 42001059 C-T Hetero INTERGENIC
SBS Chr2 9981579 G-A Homo INTERGENIC
SBS Chr2 16217365 G-A Homo INTERGENIC
SBS Chr2 30549829 C-A Hetero INTERGENIC
SBS Chr2 35266701 G-A Hetero INTERGENIC
SBS Chr2 35416395 G-T Hetero INTERGENIC
SBS Chr2 36136497 T-G Hetero INTRON
SBS Chr3 2504028 C-G Hetero NON_SYNONYMOUS_CODING OsKitaake03g035400
SBS Chr3 5490236 T-A Hetero INTRON
SBS Chr3 5490237 T-A Hetero INTRON
SBS Chr3 13659546 C-T Hetero INTERGENIC
SBS Chr3 16063571 G-A Homo INTERGENIC
SBS Chr3 32128520 G-A Homo SYNONYMOUS_CODING
SBS Chr3 36461834 G-C Homo INTERGENIC
SBS Chr4 10255008 G-A Homo INTERGENIC
SBS Chr4 31115521 G-C Homo INTERGENIC
SBS Chr5 11835208 C-T Homo INTERGENIC
SBS Chr5 29396414 G-A Hetero SYNONYMOUS_CODING
SBS Chr6 5312529 C-T Hetero INTERGENIC
SBS Chr7 2900414 T-A Hetero INTERGENIC
SBS Chr7 19084248 A-C Hetero INTERGENIC
SBS Chr7 20827585 C-T Homo INTERGENIC
SBS Chr8 357925 T-G Hetero INTERGENIC
SBS Chr8 1770949 G-T Hetero INTERGENIC
SBS Chr8 22237037 T-C Homo INTERGENIC
SBS Chr8 23096173 G-A Homo INTERGENIC
SBS Chr9 3884152 A-G Homo INTRON
SBS Chr10 2798044 T-G Homo INTERGENIC
SBS Chr10 13438332 G-A Homo INTERGENIC
SBS Chr10 13438333 T-A Homo INTERGENIC
SBS Chr10 20442595 T-C Homo INTERGENIC
SBS Chr10 20874542 A-T Homo INTERGENIC
SBS Chr10 21160583 A-T Homo INTERGENIC
SBS Chr11 6541146 T-C Hetero INTERGENIC
SBS Chr11 7885564 G-C Hetero INTERGENIC
SBS Chr11 14594301 C-T Hetero INTERGENIC
SBS Chr11 16993678 G-A Hetero INTERGENIC
SBS Chr11 17040199 A-G Hetero INTRON
SBS Chr12 9818486 A-T Hetero INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 5512820 5512828 8
Deletion Chr10 10049845 10049852 7
Deletion Chr10 20500291 20500293 2
Deletion Chr3 23127585 23127593 8
Deletion Chr11 23360482 23360487 5
Deletion Chr2 23642119 23642120 1
Deletion Chr7 27431001 27490000 58999 5
Deletion Chr11 29274001 29732000 457999 62
Deletion Chr2 29644953 29644960 7
Deletion Chr4 30079898 30079900 2
Deletion Chr4 30828984 30828993 9 OsKitaake04g238700
Deletion Chr3 37780357 37780370 13 OsKitaake03g424800
Deletion Chr1 39177001 39275000 97999 18

Insertions: 1

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 4266500 4266503 2

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr3 12405019 12645654
Inversion Chr3 12405027 12645658
Inversion Chr1 39180228 39570227
Inversion Chr1 39274839 39570234 OsKitaake01g422300

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	7536253	C-T	Homo	INTERGENIC
SBS	Chr1	9657705	C-A	Hetero	INTERGENIC
SBS	Chr1	24665789	A-G	Homo	UTR_3_PRIME
SBS	Chr1	39782625	G-T	Hetero	INTERGENIC
SBS	Chr1	42001059	C-T	Hetero	INTERGENIC
SBS	Chr2	9981579	G-A	Homo	INTERGENIC
SBS	Chr2	16217365	G-A	Homo	INTERGENIC
SBS	Chr2	30549829	C-A	Hetero	INTERGENIC
SBS	Chr2	35266701	G-A	Hetero	INTERGENIC
SBS	Chr2	35416395	G-T	Hetero	INTERGENIC
SBS	Chr2	36136497	T-G	Hetero	INTRON
SBS	Chr3	2504028	C-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g035400
SBS	Chr3	5490236	T-A	Hetero	INTRON
SBS	Chr3	5490237	T-A	Hetero	INTRON
SBS	Chr3	13659546	C-T	Hetero	INTERGENIC
SBS	Chr3	16063571	G-A	Homo	INTERGENIC
SBS	Chr3	32128520	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr3	36461834	G-C	Homo	INTERGENIC
SBS	Chr4	10255008	G-A	Homo	INTERGENIC
SBS	Chr4	31115521	G-C	Homo	INTERGENIC
SBS	Chr5	11835208	C-T	Homo	INTERGENIC
SBS	Chr5	29396414	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr6	5312529	C-T	Hetero	INTERGENIC
SBS	Chr7	2900414	T-A	Hetero	INTERGENIC
SBS	Chr7	19084248	A-C	Hetero	INTERGENIC
SBS	Chr7	20827585	C-T	Homo	INTERGENIC
SBS	Chr8	357925	T-G	Hetero	INTERGENIC
SBS	Chr8	1770949	G-T	Hetero	INTERGENIC
SBS	Chr8	22237037	T-C	Homo	INTERGENIC
SBS	Chr8	23096173	G-A	Homo	INTERGENIC
SBS	Chr9	3884152	A-G	Homo	INTRON
SBS	Chr10	2798044	T-G	Homo	INTERGENIC
SBS	Chr10	13438332	G-A	Homo	INTERGENIC
SBS	Chr10	13438333	T-A	Homo	INTERGENIC
SBS	Chr10	20442595	T-C	Homo	INTERGENIC
SBS	Chr10	20874542	A-T	Homo	INTERGENIC
SBS	Chr10	21160583	A-T	Homo	INTERGENIC
SBS	Chr11	6541146	T-C	Hetero	INTERGENIC
SBS	Chr11	7885564	G-C	Hetero	INTERGENIC
SBS	Chr11	14594301	C-T	Hetero	INTERGENIC
SBS	Chr11	16993678	G-A	Hetero	INTERGENIC
SBS	Chr11	17040199	A-G	Hetero	INTRON
SBS	Chr12	9818486	A-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	5512820	5512828	8
Deletion	Chr10	10049845	10049852	7
Deletion	Chr10	20500291	20500293	2
Deletion	Chr3	23127585	23127593	8
Deletion	Chr11	23360482	23360487	5
Deletion	Chr2	23642119	23642120	1
Deletion	Chr7	27431001	27490000	58999	5
Deletion	Chr11	29274001	29732000	457999	62
Deletion	Chr2	29644953	29644960	7
Deletion	Chr4	30079898	30079900	2
Deletion	Chr4	30828984	30828993	9	OsKitaake04g238700
Deletion	Chr3	37780357	37780370	13	OsKitaake03g424800
Deletion	Chr1	39177001	39275000	97999	18

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	12405019	12645654
Inversion	Chr3	12405027	12645658
Inversion	Chr1	39180228	39570227
Inversion	Chr1	39274839	39570234	OsKitaake01g422300

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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