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Mutant Information

Mutant Name	FN1287-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1287-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: 46

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 12370655 G-A Hetero INTERGENIC
SBS Chr1 31627476 A-G Hetero INTRON
SBS Chr1 41266961 C-A Homo INTRON
SBS Chr1 41266964 T-A Homo INTRON
SBS Chr2 4126219 A-G Hetero UTR_3_PRIME
SBS Chr2 17191983 T-C Hetero INTERGENIC
SBS Chr2 36506203 G-A Homo INTRON
SBS Chr3 7086831 G-T Hetero INTERGENIC
SBS Chr3 18059322 C-T Hetero INTERGENIC
SBS Chr4 3736652 C-G Hetero INTERGENIC
SBS Chr4 5843882 G-A Hetero INTERGENIC
SBS Chr4 6225931 G-A Hetero INTERGENIC
SBS Chr4 14332486 T-C Hetero INTERGENIC
SBS Chr4 35299664 C-A Hetero INTERGENIC
SBS Chr4 36917374 T-C Hetero INTRON
SBS Chr5 12080981 A-C Homo INTRON
SBS Chr5 16916350 G-A Hetero INTERGENIC
SBS Chr5 16916354 T-G Hetero INTERGENIC
SBS Chr5 27829603 A-C Hetero INTRON
SBS Chr6 12622340 C-G Hetero NON_SYNONYMOUS_CODING OsKitaake06g134950
SBS Chr6 15004158 A-G Hetero INTERGENIC
SBS Chr6 25987471 T-A Hetero INTRON
SBS Chr7 563292 C-T Hetero INTERGENIC
SBS Chr7 3364013 C-G Hetero INTERGENIC
SBS Chr7 8298019 C-A Hetero INTERGENIC
SBS Chr7 16675463 T-A Hetero INTERGENIC
SBS Chr7 22425197 T-C Hetero INTERGENIC
SBS Chr8 18416246 C-T Hetero INTERGENIC
SBS Chr8 19229373 G-A Homo INTERGENIC
SBS Chr8 27863013 G-A Homo INTERGENIC
SBS Chr9 3477725 C-T Hetero INTERGENIC
SBS Chr9 12977853 C-T Hetero INTERGENIC
SBS Chr9 16367112 T-C Hetero INTERGENIC
SBS Chr9 17163622 G-A Homo SYNONYMOUS_CODING
SBS Chr9 17163623 T-A Homo NON_SYNONYMOUS_CODING OsKitaake09g128300
SBS Chr9 20424621 G-A Hetero INTERGENIC
SBS Chr10 344682 C-T Hetero INTERGENIC
SBS Chr10 3894188 A-G Hetero INTERGENIC
SBS Chr10 4323889 C-T Hetero INTERGENIC
SBS Chr11 7090704 T-C Homo INTERGENIC
SBS Chr11 13159711 A-T Hetero INTERGENIC
SBS Chr11 15474711 G-A Hetero INTERGENIC
SBS Chr11 28185529 G-A Hetero INTERGENIC
SBS Chr11 29725604 G-A Hetero INTERGENIC
SBS Chr12 9076893 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake12g090132
SBS Chr12 14521183 C-A Hetero INTERGENIC

Deletions: 19

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 544001 757000 212999 2
Deletion Chr9 563145 563212 67
Deletion Chr8 623616 623627 11
Deletion Chr8 6207118 6207128 10
Deletion Chr10 7626001 7937000 310999 9
Deletion Chr10 7945001 8006000 60999 2
Deletion Chr11 8608338 8608351 13
Deletion Chr5 15015973 15015974 1
Deletion Chr1 18453145 18453154 9
Deletion Chr1 18795592 18795595 3
Deletion Chr1 20416057 20416059 2
Deletion Chr5 20540684 20540685 1 OsKitaake05g163700
Deletion Chr1 21122696 21122713 17
Deletion Chr2 22460001 22714000 253999 34
Deletion Chr12 24001435 24001439 4
Deletion Chr2 25807245 25807262 17
Deletion Chr4 28972276 28972282 6
Deletion Chr2 35697795 35697796 1
Deletion Chr4 36805150 36805152 2

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 20678370 20678373 2
Insertion Chr11 8602043 8602045 1
Insertion Chr2 13778278 13778280 1

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 693047 Chr8 5031753 OsKitaake08g054900
Translocation Chr9 693890 Chr8 5031749 OsKitaake08g054900
Translocation Chr9 5848897 Chr3 33057496
Translocation Chr9 5854471 Chr3 33057500

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12370655	G-A	Hetero	INTERGENIC
SBS	Chr1	31627476	A-G	Hetero	INTRON
SBS	Chr1	41266961	C-A	Homo	INTRON
SBS	Chr1	41266964	T-A	Homo	INTRON
SBS	Chr2	4126219	A-G	Hetero	UTR_3_PRIME
SBS	Chr2	17191983	T-C	Hetero	INTERGENIC
SBS	Chr2	36506203	G-A	Homo	INTRON
SBS	Chr3	7086831	G-T	Hetero	INTERGENIC
SBS	Chr3	18059322	C-T	Hetero	INTERGENIC
SBS	Chr4	3736652	C-G	Hetero	INTERGENIC
SBS	Chr4	5843882	G-A	Hetero	INTERGENIC
SBS	Chr4	6225931	G-A	Hetero	INTERGENIC
SBS	Chr4	14332486	T-C	Hetero	INTERGENIC
SBS	Chr4	35299664	C-A	Hetero	INTERGENIC
SBS	Chr4	36917374	T-C	Hetero	INTRON
SBS	Chr5	12080981	A-C	Homo	INTRON
SBS	Chr5	16916350	G-A	Hetero	INTERGENIC
SBS	Chr5	16916354	T-G	Hetero	INTERGENIC
SBS	Chr5	27829603	A-C	Hetero	INTRON
SBS	Chr6	12622340	C-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g134950
SBS	Chr6	15004158	A-G	Hetero	INTERGENIC
SBS	Chr6	25987471	T-A	Hetero	INTRON
SBS	Chr7	563292	C-T	Hetero	INTERGENIC
SBS	Chr7	3364013	C-G	Hetero	INTERGENIC
SBS	Chr7	8298019	C-A	Hetero	INTERGENIC
SBS	Chr7	16675463	T-A	Hetero	INTERGENIC
SBS	Chr7	22425197	T-C	Hetero	INTERGENIC
SBS	Chr8	18416246	C-T	Hetero	INTERGENIC
SBS	Chr8	19229373	G-A	Homo	INTERGENIC
SBS	Chr8	27863013	G-A	Homo	INTERGENIC
SBS	Chr9	3477725	C-T	Hetero	INTERGENIC
SBS	Chr9	12977853	C-T	Hetero	INTERGENIC
SBS	Chr9	16367112	T-C	Hetero	INTERGENIC
SBS	Chr9	17163622	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr9	17163623	T-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake09g128300
SBS	Chr9	20424621	G-A	Hetero	INTERGENIC
SBS	Chr10	344682	C-T	Hetero	INTERGENIC
SBS	Chr10	3894188	A-G	Hetero	INTERGENIC
SBS	Chr10	4323889	C-T	Hetero	INTERGENIC
SBS	Chr11	7090704	T-C	Homo	INTERGENIC
SBS	Chr11	13159711	A-T	Hetero	INTERGENIC
SBS	Chr11	15474711	G-A	Hetero	INTERGENIC
SBS	Chr11	28185529	G-A	Hetero	INTERGENIC
SBS	Chr11	29725604	G-A	Hetero	INTERGENIC
SBS	Chr12	9076893	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake12g090132
SBS	Chr12	14521183	C-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	544001	757000	212999	2
Deletion	Chr9	563145	563212	67
Deletion	Chr8	623616	623627	11
Deletion	Chr8	6207118	6207128	10
Deletion	Chr10	7626001	7937000	310999	9
Deletion	Chr10	7945001	8006000	60999	2
Deletion	Chr11	8608338	8608351	13
Deletion	Chr5	15015973	15015974	1
Deletion	Chr1	18453145	18453154	9
Deletion	Chr1	18795592	18795595	3
Deletion	Chr1	20416057	20416059	2
Deletion	Chr5	20540684	20540685	1	OsKitaake05g163700
Deletion	Chr1	21122696	21122713	17
Deletion	Chr2	22460001	22714000	253999	34
Deletion	Chr12	24001435	24001439	4
Deletion	Chr2	25807245	25807262	17
Deletion	Chr4	28972276	28972282	6
Deletion	Chr2	35697795	35697796	1
Deletion	Chr4	36805150	36805152	2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	693047	Chr8	5031753	OsKitaake08g054900
Translocation	Chr9	693890	Chr8	5031749	OsKitaake08g054900
Translocation	Chr9	5848897	Chr3	33057496
Translocation	Chr9	5854471	Chr3	33057500

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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

Chromosome

Position 2

Number of Genes