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Mutant Information

Mutant Name	FN1340-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1340-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) = Low (Between 25% and 74%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 34

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 6067172 T-C Hetero INTERGENIC
SBS Chr1 7949823 C-T Hetero INTERGENIC
SBS Chr1 15002295 A-T Hetero INTERGENIC
SBS Chr1 15237482 G-A Homo INTRON
SBS Chr1 38947656 G-A Homo INTERGENIC
SBS Chr2 19370797 A-C Homo INTERGENIC
SBS Chr3 3155191 A-C Hetero INTERGENIC
SBS Chr3 5197390 G-A Hetero INTERGENIC
SBS Chr3 25508184 T-A Hetero INTRON
SBS Chr4 10774869 A-T Hetero INTERGENIC
SBS Chr4 16135216 C-T Hetero INTERGENIC
SBS Chr4 18350022 T-C Hetero INTERGENIC
SBS Chr4 29010688 C-A Homo INTERGENIC
SBS Chr5 3951759 G-A Hetero INTERGENIC
SBS Chr5 10487446 A-T Homo INTERGENIC
SBS Chr6 5930143 T-C Hetero INTERGENIC
SBS Chr6 11472822 C-T Hetero INTERGENIC
SBS Chr6 19315450 C-A Hetero INTERGENIC
SBS Chr7 2449133 T-G Homo INTERGENIC
SBS Chr7 15285345 A-G Homo INTERGENIC
SBS Chr7 15285346 C-G Homo INTERGENIC
SBS Chr7 15289903 T-C Homo INTERGENIC
SBS Chr8 5301019 C-T Hetero INTERGENIC
SBS Chr8 23761016 C-T Hetero INTERGENIC
SBS Chr9 1549428 A-T Hetero INTERGENIC
SBS Chr9 3972714 T-A Hetero INTERGENIC
SBS Chr10 756226 G-T Hetero INTERGENIC
SBS Chr10 4373235 A-G Hetero INTERGENIC
SBS Chr11 9994559 G-A Hetero INTERGENIC
SBS Chr11 15297889 C-T Hetero INTERGENIC
SBS Chr11 18387923 T-C Hetero INTERGENIC
SBS Chr11 20087132 C-T Hetero INTERGENIC
SBS Chr11 23381314 G-A Homo INTERGENIC
SBS Chr12 23713035 T-C Homo INTERGENIC

Deletions: 19

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 13902 13903 1
Deletion Chr6 20090 20091 1
Deletion Chr6 85068 85076 8
Deletion Chr3 512380 512384 4
Deletion Chr4 617220 617221 1
Deletion Chr4 4310256 4310257 1
Deletion Chr9 5800345 5800346 1
Deletion Chr10 8678870 8679035 165
Deletion Chr8 10683908 10683912 4
Deletion Chr4 13253001 13378000 124999 14
Deletion Chr4 13633141 13633148 7
Deletion Chr12 14835001 14942000 106999 4
Deletion Chr10 15828648 15828650 2
Deletion Chr9 17062572 17062573 1
Deletion Chr8 17995138 17995142 4
Deletion Chr3 20052841 20052996 155
Deletion Chr8 21131864 21131868 4
Deletion Chr7 21207181 21207183 2
Deletion Chr3 23546001 23766000 219999 18

Insertions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 9765307 9765311 3
Insertion Chr4 12877146 12877148 1
Insertion Chr4 15864378 15864381 2
Insertion Chr7 4125600 4125603 2
Insertion Chr9 10196121 10196124 2
Insertion Chr2 13778278 13778280 1
Insertion Chr12 11657200 11657202 1

Inversions: 3

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 8006532 8079742
Inversion Chr8 8006548 8079750
Inversion Chr4 12898326 13256314

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	6067172	T-C	Hetero	INTERGENIC
SBS	Chr1	7949823	C-T	Hetero	INTERGENIC
SBS	Chr1	15002295	A-T	Hetero	INTERGENIC
SBS	Chr1	15237482	G-A	Homo	INTRON
SBS	Chr1	38947656	G-A	Homo	INTERGENIC
SBS	Chr2	19370797	A-C	Homo	INTERGENIC
SBS	Chr3	3155191	A-C	Hetero	INTERGENIC
SBS	Chr3	5197390	G-A	Hetero	INTERGENIC
SBS	Chr3	25508184	T-A	Hetero	INTRON
SBS	Chr4	10774869	A-T	Hetero	INTERGENIC
SBS	Chr4	16135216	C-T	Hetero	INTERGENIC
SBS	Chr4	18350022	T-C	Hetero	INTERGENIC
SBS	Chr4	29010688	C-A	Homo	INTERGENIC
SBS	Chr5	3951759	G-A	Hetero	INTERGENIC
SBS	Chr5	10487446	A-T	Homo	INTERGENIC
SBS	Chr6	5930143	T-C	Hetero	INTERGENIC
SBS	Chr6	11472822	C-T	Hetero	INTERGENIC
SBS	Chr6	19315450	C-A	Hetero	INTERGENIC
SBS	Chr7	2449133	T-G	Homo	INTERGENIC
SBS	Chr7	15285345	A-G	Homo	INTERGENIC
SBS	Chr7	15285346	C-G	Homo	INTERGENIC
SBS	Chr7	15289903	T-C	Homo	INTERGENIC
SBS	Chr8	5301019	C-T	Hetero	INTERGENIC
SBS	Chr8	23761016	C-T	Hetero	INTERGENIC
SBS	Chr9	1549428	A-T	Hetero	INTERGENIC
SBS	Chr9	3972714	T-A	Hetero	INTERGENIC
SBS	Chr10	756226	G-T	Hetero	INTERGENIC
SBS	Chr10	4373235	A-G	Hetero	INTERGENIC
SBS	Chr11	9994559	G-A	Hetero	INTERGENIC
SBS	Chr11	15297889	C-T	Hetero	INTERGENIC
SBS	Chr11	18387923	T-C	Hetero	INTERGENIC
SBS	Chr11	20087132	C-T	Hetero	INTERGENIC
SBS	Chr11	23381314	G-A	Homo	INTERGENIC
SBS	Chr12	23713035	T-C	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	13902	13903	1
Deletion	Chr6	20090	20091	1
Deletion	Chr6	85068	85076	8
Deletion	Chr3	512380	512384	4
Deletion	Chr4	617220	617221	1
Deletion	Chr4	4310256	4310257	1
Deletion	Chr9	5800345	5800346	1
Deletion	Chr10	8678870	8679035	165
Deletion	Chr8	10683908	10683912	4
Deletion	Chr4	13253001	13378000	124999	14
Deletion	Chr4	13633141	13633148	7
Deletion	Chr12	14835001	14942000	106999	4
Deletion	Chr10	15828648	15828650	2
Deletion	Chr9	17062572	17062573	1
Deletion	Chr8	17995138	17995142	4
Deletion	Chr3	20052841	20052996	155
Deletion	Chr8	21131864	21131868	4
Deletion	Chr7	21207181	21207183	2
Deletion	Chr3	23546001	23766000	219999	18

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	8006532	8079742
Inversion	Chr8	8006548	8079750
Inversion	Chr4	12898326	13256314

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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