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Mutant Information

Mutant Name	FN553-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN553-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
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 25

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12858631	A-T	HET	INTERGENIC
SBS	Chr1	369768	A-T	HET	INTRON
SBS	Chr1	37128334	C-T	HET	INTERGENIC
SBS	Chr1	39486515	T-C	HOMO	INTERGENIC
SBS	Chr1	5511192	A-T	HOMO	STOP_GAINED	LOC_Os01g10450
SBS	Chr10	20820934	C-A	HET	INTERGENIC
SBS	Chr11	14708198	A-G	HET	INTRON
SBS	Chr11	18206368	G-T	HET	INTERGENIC
SBS	Chr11	23324428	C-T	HOMO	INTERGENIC
SBS	Chr11	25460512	C-T	HOMO	INTERGENIC
SBS	Chr12	19431769	G-A	HET	INTERGENIC
SBS	Chr2	13038481	A-G	HOMO	INTERGENIC
SBS	Chr3	3054865	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g06100
SBS	Chr3	6635995	A-G	HET	INTERGENIC
SBS	Chr4	24670291	G-A	HET	INTRON
SBS	Chr4	24670293	G-A	HET	INTRON
SBS	Chr5	21151685	T-C	HET	INTERGENIC
SBS	Chr6	2125823	C-T	HET	INTERGENIC
SBS	Chr7	27074756	T-A	HET	INTRON
SBS	Chr7	29058470	G-T	HET	INTERGENIC
SBS	Chr8	24224132	G-T	HOMO	INTRON
SBS	Chr8	3396154	T-A	HOMO	INTERGENIC
SBS	Chr8	6039042	G-A	HOMO	UTR_3_PRIME
SBS	Chr9	10832655	C-T	HET	INTERGENIC
SBS	Chr9	9150320	A-G	HET	INTRON

Deletions: 28

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr7	1491105	1491106	1
Deletion	Chr11	2497856	2497857	1
Deletion	Chr8	2807051	2817513	10462	LOC_Os08g05340
Deletion	Chr8	3532913	3532914	1
Deletion	Chr4	4062001	4162000	100000	18
Deletion	Chr11	4109056	4109064	8
Deletion	Chr4	5207752	5207753	1
Deletion	Chr5	7175068	7175070	2
Deletion	Chr3	8328547	8328548	1	LOC_Os03g15220
Deletion	Chr6	11213870	11213875	5
Deletion	Chr5	11701449	11701452	3
Deletion	Chr12	12641188	12641201	13	LOC_Os12g22380
Deletion	Chr8	13586300	13586316	16
Deletion	Chr5	14710107	14710143	36
Deletion	Chr10	18123041	18123042	1
Deletion	Chr8	18159784	18159791	7
Deletion	Chr10	19577414	19577417	3
Deletion	Chr5	20537863	20538867	1004	LOC_Os05g34630
Deletion	Chr5	23864715	23864719	4
Deletion	Chr7	25383170	25383171	1	LOC_Os07g42410
Deletion	Chr12	26244206	26244209	3
Deletion	Chr11	26756458	26756461	3
Deletion	Chr2	27436074	27436077	3	LOC_Os02g45200
Deletion	Chr4	27775412	27775428	16
Deletion	Chr1	29306907	29306913	6	LOC_Os01g51010
Deletion	Chr6	30375420	30375442	22
Deletion	Chr2	32225401	32225402	1
Deletion	Chr1	39923353	39923363	10	LOC_Os01g68730

Insertions: 7

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr2	34251808	34251809	2
Insertion	Chr3	16176042	16176043	2
Insertion	Chr4	4167580	4167581	2
Insertion	Chr5	16375533	16375534	2
Insertion	Chr7	3223558	3223561	4
Insertion	Chr9	10403603	10403604	2
Insertion	Chr9	3178230	3178231	2

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	170813	936259	LOC_Os10g01260
Inversion	Chr5	6199776	21614264	2
Inversion	Chr3	25907017	30952223
Inversion	Chr3	32172590	33183731	LOC_Os03g58240

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	249606	Chr5	6133758	LOC_Os05g10980
Translocation	Chr8	249873	Chr5	6133728
Translocation	Chr12	4820674	Chr9	18095065
Translocation	Chr5	20537879	Chr1	29754991	LOC_Os05g34630
Translocation	Chr5	21422202	Chr3	25354096

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