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Mutant Information

Mutant Name	FN389-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN389-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Very Low (Below 24%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 44

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 6094051 C-G Hetero NON_SYNONYMOUS_CODING OsKitaake01g077500
SBS Chr1 10532217 G-A Hetero INTERGENIC
SBS Chr1 11949538 A-T Hetero INTERGENIC
SBS Chr1 25403863 G-A Homo INTRON
SBS Chr1 25877572 A-G Homo INTERGENIC
SBS Chr1 27910916 C-A Homo INTRON
SBS Chr2 3959964 G-A Hetero INTERGENIC
SBS Chr2 11550297 C-T Hetero INTERGENIC
SBS Chr2 28457205 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake02g286400
SBS Chr3 23068220 T-A Hetero INTERGENIC
SBS Chr3 30070663 C-G Hetero INTRON
SBS Chr3 32621893 C-T Hetero INTERGENIC
SBS Chr3 33529961 G-C Homo INTRON
SBS Chr4 14036306 T-A Homo INTERGENIC
SBS Chr4 19651598 G-A Hetero INTERGENIC
SBS Chr4 32842843 T-A Hetero INTRON
SBS Chr5 10302293 G-A Hetero INTERGENIC
SBS Chr5 11523296 G-C Hetero INTERGENIC
SBS Chr5 14313325 G-A Hetero INTERGENIC
SBS Chr5 15055708 T-A Hetero INTERGENIC
SBS Chr5 22598084 G-T Hetero INTERGENIC
SBS Chr5 28330838 G-A Hetero INTERGENIC
SBS Chr6 17600797 G-A Homo INTERGENIC
SBS Chr6 30080575 T-G Homo INTRON
SBS Chr7 10411484 G-A Hetero INTERGENIC
SBS Chr8 5928772 C-A Hetero INTERGENIC
SBS Chr8 5928774 C-T Hetero INTERGENIC
SBS Chr8 26473151 G-T Hetero INTRON
SBS Chr9 7038513 G-T Homo STOP_GAINED OsKitaake09g040900
SBS Chr10 12567794 C-T Hetero INTERGENIC
SBS Chr11 1908804 C-T Hetero INTERGENIC
SBS Chr11 5029807 G-A Hetero INTERGENIC
SBS Chr11 5930359 C-T Hetero INTRON
SBS Chr11 6283959 C-T Hetero INTERGENIC
SBS Chr11 10102127 T-A Hetero INTERGENIC
SBS Chr11 11296967 A-G Hetero INTRON
SBS Chr11 17450658 A-G Hetero INTERGENIC
SBS Chr11 19158023 T-C Hetero INTERGENIC
SBS Chr12 8710717 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake12g088100
SBS Chr12 9310408 A-G Hetero INTRON
SBS Chr12 9312579 C-T Hetero INTRON
SBS Chr12 11349358 C-T Hetero INTRON
SBS Chr12 14343818 C-T Hetero INTERGENIC
SBS Chr12 15771359 T-C Hetero INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 546035 546037 2 OsKitaake04g004000
Deletion Chr1 3676860 3676866 6
Deletion Chr2 9893590 9893606 16
Deletion Chr3 11982353 11982358 5
Deletion Chr4 13059541 13059548 7
Deletion Chr4 14418773 14418781 8
Deletion Chr6 14475762 14475769 7
Deletion Chr6 14503620 14503628 8
Deletion Chr5 15682001 15974000 291999 20
Deletion Chr12 23980834 23980836 2
Deletion Chr6 24129900 24129901 1
Deletion Chr3 31554057 31554058 1
Deletion Chr1 40577001 40614000 36999 6

Insertions: 8

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 11405891 11405894 2
Insertion Chr6 3756072 3756075 2
Insertion Chr6 24606123 24606126 2
Insertion Chr8 4322599 4322603 3
Insertion Chr10 20984312 20984315 2
Insertion Chr11 9041888 9041891 2
Insertion Chr11 21087156 21087163 6
Insertion Chr12 11688580 11688582 1

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 5231793 Chr2 30728427
Translocation Chr11 5234093 Chr2 30728424 OsKitaake11g065900

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	6094051	C-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g077500
SBS	Chr1	10532217	G-A	Hetero	INTERGENIC
SBS	Chr1	11949538	A-T	Hetero	INTERGENIC
SBS	Chr1	25403863	G-A	Homo	INTRON
SBS	Chr1	25877572	A-G	Homo	INTERGENIC
SBS	Chr1	27910916	C-A	Homo	INTRON
SBS	Chr2	3959964	G-A	Hetero	INTERGENIC
SBS	Chr2	11550297	C-T	Hetero	INTERGENIC
SBS	Chr2	28457205	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake02g286400
SBS	Chr3	23068220	T-A	Hetero	INTERGENIC
SBS	Chr3	30070663	C-G	Hetero	INTRON
SBS	Chr3	32621893	C-T	Hetero	INTERGENIC
SBS	Chr3	33529961	G-C	Homo	INTRON
SBS	Chr4	14036306	T-A	Homo	INTERGENIC
SBS	Chr4	19651598	G-A	Hetero	INTERGENIC
SBS	Chr4	32842843	T-A	Hetero	INTRON
SBS	Chr5	10302293	G-A	Hetero	INTERGENIC
SBS	Chr5	11523296	G-C	Hetero	INTERGENIC
SBS	Chr5	14313325	G-A	Hetero	INTERGENIC
SBS	Chr5	15055708	T-A	Hetero	INTERGENIC
SBS	Chr5	22598084	G-T	Hetero	INTERGENIC
SBS	Chr5	28330838	G-A	Hetero	INTERGENIC
SBS	Chr6	17600797	G-A	Homo	INTERGENIC
SBS	Chr6	30080575	T-G	Homo	INTRON
SBS	Chr7	10411484	G-A	Hetero	INTERGENIC
SBS	Chr8	5928772	C-A	Hetero	INTERGENIC
SBS	Chr8	5928774	C-T	Hetero	INTERGENIC
SBS	Chr8	26473151	G-T	Hetero	INTRON
SBS	Chr9	7038513	G-T	Homo	STOP_GAINED	OsKitaake09g040900
SBS	Chr10	12567794	C-T	Hetero	INTERGENIC
SBS	Chr11	1908804	C-T	Hetero	INTERGENIC
SBS	Chr11	5029807	G-A	Hetero	INTERGENIC
SBS	Chr11	5930359	C-T	Hetero	INTRON
SBS	Chr11	6283959	C-T	Hetero	INTERGENIC
SBS	Chr11	10102127	T-A	Hetero	INTERGENIC
SBS	Chr11	11296967	A-G	Hetero	INTRON
SBS	Chr11	17450658	A-G	Hetero	INTERGENIC
SBS	Chr11	19158023	T-C	Hetero	INTERGENIC
SBS	Chr12	8710717	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake12g088100
SBS	Chr12	9310408	A-G	Hetero	INTRON
SBS	Chr12	9312579	C-T	Hetero	INTRON
SBS	Chr12	11349358	C-T	Hetero	INTRON
SBS	Chr12	14343818	C-T	Hetero	INTERGENIC
SBS	Chr12	15771359	T-C	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	546035	546037	2	OsKitaake04g004000
Deletion	Chr1	3676860	3676866	6
Deletion	Chr2	9893590	9893606	16
Deletion	Chr3	11982353	11982358	5
Deletion	Chr4	13059541	13059548	7
Deletion	Chr4	14418773	14418781	8
Deletion	Chr6	14475762	14475769	7
Deletion	Chr6	14503620	14503628	8
Deletion	Chr5	15682001	15974000	291999	20
Deletion	Chr12	23980834	23980836	2
Deletion	Chr6	24129900	24129901	1
Deletion	Chr3	31554057	31554058	1
Deletion	Chr1	40577001	40614000	36999	6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	5231793	Chr2	30728427
Translocation	Chr11	5234093	Chr2	30728424	OsKitaake11g065900

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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