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Mutant Information

Mutant Name	FN2489 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2489 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 51

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1010315 C-T Homo INTERGENIC
SBS Chr1 11883748 C-T Hetero INTERGENIC
SBS Chr1 15532834 G-A Hetero INTERGENIC
SBS Chr1 17722177 T-C Hetero INTERGENIC
SBS Chr1 18271086 G-A Hetero INTRON
SBS Chr1 18370641 A-T Hetero INTERGENIC
SBS Chr2 3446688 A-C Hetero INTRON
SBS Chr2 10475933 G-A Hetero INTERGENIC
SBS Chr2 32400497 G-A Hetero INTERGENIC
SBS Chr3 2965772 T-C Homo INTERGENIC
SBS Chr3 9358917 G-T Hetero INTERGENIC
SBS Chr3 13050701 C-T Hetero INTERGENIC
SBS Chr3 13319191 T-C Hetero INTERGENIC
SBS Chr3 19531577 C-A Hetero INTERGENIC
SBS Chr3 30361946 T-G Hetero INTRON
SBS Chr3 33487209 G-T Hetero INTERGENIC
SBS Chr4 946753 G-A Hetero START_GAINED
SBS Chr4 3593594 T-C Hetero INTERGENIC
SBS Chr4 4456932 C-G Homo INTERGENIC
SBS Chr4 19549735 C-A Hetero INTRON
SBS Chr5 13973234 T-A Homo UTR_3_PRIME
SBS Chr5 18899691 G-A Homo INTERGENIC
SBS Chr5 29177251 C-T Hetero INTERGENIC
SBS Chr6 1090723 C-T Hetero INTERGENIC
SBS Chr6 1581851 G-A Hetero INTERGENIC
SBS Chr6 6254861 G-A Hetero SPLICE_SITE_REGION
SBS Chr6 8702953 G-A Homo INTERGENIC
SBS Chr6 8702954 C-A Homo INTERGENIC
SBS Chr6 14583223 A-T Hetero INTERGENIC
SBS Chr6 22189334 A-T Hetero START_GAINED
SBS Chr6 26331975 A-T Hetero INTERGENIC
SBS Chr6 26333838 C-A Hetero INTERGENIC
SBS Chr6 26868203 C-A Hetero INTERGENIC
SBS Chr6 27698712 C-A Hetero INTERGENIC
SBS Chr6 27957482 G-T Hetero INTERGENIC
SBS Chr7 12752942 C-T Homo INTERGENIC
SBS Chr7 27944311 C-T Homo INTERGENIC
SBS Chr7 27962596 G-T Homo INTERGENIC
SBS Chr8 8019004 T-A Homo INTERGENIC
SBS Chr8 13369077 G-T Hetero INTRON
SBS Chr9 6096961 C-T Hetero INTERGENIC
SBS Chr9 13525979 A-T Homo INTERGENIC
SBS Chr10 2707400 A-G Hetero INTERGENIC
SBS Chr10 9620678 C-A Hetero INTERGENIC
SBS Chr10 16121673 T-C Hetero INTERGENIC
SBS Chr10 16654510 T-A Hetero INTERGENIC
SBS Chr11 26848322 A-G Homo INTERGENIC
SBS Chr12 334557 T-C Hetero INTRON
SBS Chr12 16622726 T-A Homo INTERGENIC
SBS Chr12 16622727 A-G Homo INTERGENIC
SBS Chr12 26907001 C-T Hetero INTRON

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 944885 944890 5
Deletion Chr1 1710441 1710443 2
Deletion Chr3 6215702 6215705 3
Deletion Chr5 14468896 14468900 4
Deletion Chr9 16608930 16608932 2
Deletion Chr6 18099425 18099551 126
Deletion Chr2 24484274 24484275 1
Deletion Chr7 27971811 27971815 4
Deletion Chr7 28904355 28904356 1
Deletion Chr1 29295001 29322000 26999 8
Deletion Chr4 29927006 29927007 1
Deletion Chr4 31719287 31719295 8
Deletion Chr3 36407623 36407628 5

Insertions: 9

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 1728742 1728745 2
Insertion Chr3 15940717 15940720 2
Insertion Chr3 19122371 19122374 2
Insertion Chr4 577968 577971 2
Insertion Chr6 4202928 4202932 3
Insertion Chr7 7941766 7941774 7
Insertion Chr8 3014727 3014730 2
Insertion Chr9 20842599 20842603 3
Insertion Chr1 6413509 6413512 2

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 27270734 27602166 2

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr8 27602172 Chr2 7318174 OsKitaake08g232400

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1010315	C-T	Homo	INTERGENIC
SBS	Chr1	11883748	C-T	Hetero	INTERGENIC
SBS	Chr1	15532834	G-A	Hetero	INTERGENIC
SBS	Chr1	17722177	T-C	Hetero	INTERGENIC
SBS	Chr1	18271086	G-A	Hetero	INTRON
SBS	Chr1	18370641	A-T	Hetero	INTERGENIC
SBS	Chr2	3446688	A-C	Hetero	INTRON
SBS	Chr2	10475933	G-A	Hetero	INTERGENIC
SBS	Chr2	32400497	G-A	Hetero	INTERGENIC
SBS	Chr3	2965772	T-C	Homo	INTERGENIC
SBS	Chr3	9358917	G-T	Hetero	INTERGENIC
SBS	Chr3	13050701	C-T	Hetero	INTERGENIC
SBS	Chr3	13319191	T-C	Hetero	INTERGENIC
SBS	Chr3	19531577	C-A	Hetero	INTERGENIC
SBS	Chr3	30361946	T-G	Hetero	INTRON
SBS	Chr3	33487209	G-T	Hetero	INTERGENIC
SBS	Chr4	946753	G-A	Hetero	START_GAINED
SBS	Chr4	3593594	T-C	Hetero	INTERGENIC
SBS	Chr4	4456932	C-G	Homo	INTERGENIC
SBS	Chr4	19549735	C-A	Hetero	INTRON
SBS	Chr5	13973234	T-A	Homo	UTR_3_PRIME
SBS	Chr5	18899691	G-A	Homo	INTERGENIC
SBS	Chr5	29177251	C-T	Hetero	INTERGENIC
SBS	Chr6	1090723	C-T	Hetero	INTERGENIC
SBS	Chr6	1581851	G-A	Hetero	INTERGENIC
SBS	Chr6	6254861	G-A	Hetero	SPLICE_SITE_REGION
SBS	Chr6	8702953	G-A	Homo	INTERGENIC
SBS	Chr6	8702954	C-A	Homo	INTERGENIC
SBS	Chr6	14583223	A-T	Hetero	INTERGENIC
SBS	Chr6	22189334	A-T	Hetero	START_GAINED
SBS	Chr6	26331975	A-T	Hetero	INTERGENIC
SBS	Chr6	26333838	C-A	Hetero	INTERGENIC
SBS	Chr6	26868203	C-A	Hetero	INTERGENIC
SBS	Chr6	27698712	C-A	Hetero	INTERGENIC
SBS	Chr6	27957482	G-T	Hetero	INTERGENIC
SBS	Chr7	12752942	C-T	Homo	INTERGENIC
SBS	Chr7	27944311	C-T	Homo	INTERGENIC
SBS	Chr7	27962596	G-T	Homo	INTERGENIC
SBS	Chr8	8019004	T-A	Homo	INTERGENIC
SBS	Chr8	13369077	G-T	Hetero	INTRON
SBS	Chr9	6096961	C-T	Hetero	INTERGENIC
SBS	Chr9	13525979	A-T	Homo	INTERGENIC
SBS	Chr10	2707400	A-G	Hetero	INTERGENIC
SBS	Chr10	9620678	C-A	Hetero	INTERGENIC
SBS	Chr10	16121673	T-C	Hetero	INTERGENIC
SBS	Chr10	16654510	T-A	Hetero	INTERGENIC
SBS	Chr11	26848322	A-G	Homo	INTERGENIC
SBS	Chr12	334557	T-C	Hetero	INTRON
SBS	Chr12	16622726	T-A	Homo	INTERGENIC
SBS	Chr12	16622727	A-G	Homo	INTERGENIC
SBS	Chr12	26907001	C-T	Hetero	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	944885	944890	5
Deletion	Chr1	1710441	1710443	2
Deletion	Chr3	6215702	6215705	3
Deletion	Chr5	14468896	14468900	4
Deletion	Chr9	16608930	16608932	2
Deletion	Chr6	18099425	18099551	126
Deletion	Chr2	24484274	24484275	1
Deletion	Chr7	27971811	27971815	4
Deletion	Chr7	28904355	28904356	1
Deletion	Chr1	29295001	29322000	26999	8
Deletion	Chr4	29927006	29927007	1
Deletion	Chr4	31719287	31719295	8
Deletion	Chr3	36407623	36407628	5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	27270734	27602166	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