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Mutant Information

Mutant Name	FN564-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN564-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: 28

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	26301418	C-A	HET	INTRON
SBS	Chr1	32928809	T-C	HOMO	INTERGENIC
SBS	Chr1	5134226	T-C	HET	INTERGENIC
SBS	Chr10	16381556	T-A	HET	INTERGENIC
SBS	Chr10	4449157	A-G	HET	INTERGENIC
SBS	Chr10	5360589	G-A	HET	INTERGENIC
SBS	Chr11	10378174	G-A	HOMO	INTERGENIC
SBS	Chr11	5570127	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g10260
SBS	Chr11	7935894	A-G	HOMO	INTERGENIC
SBS	Chr12	13038517	C-T	HET	INTRON
SBS	Chr12	16031933	C-T	HET	INTERGENIC
SBS	Chr12	16998554	C-T	HET	INTERGENIC
SBS	Chr12	22122132	G-A	HET	INTERGENIC
SBS	Chr3	23330590	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g41990
SBS	Chr4	23381239	G-A	HOMO	INTERGENIC
SBS	Chr5	28766945	G-A	HET	INTERGENIC
SBS	Chr5	5154448	C-A	HET	INTRON
SBS	Chr6	12619528	C-T	HET	INTERGENIC
SBS	Chr6	16106005	G-A	HET	INTERGENIC
SBS	Chr7	10267122	C-T	HET	INTERGENIC
SBS	Chr8	11002016	G-A	HOMO	INTERGENIC
SBS	Chr8	15960404	T-C	HET	INTERGENIC
SBS	Chr8	15960406	T-A	HET	INTERGENIC
SBS	Chr8	22637006	A-T	HOMO	INTRON
SBS	Chr8	27610375	T-A	HOMO	INTRON
SBS	Chr8	27612835	A-G	HOMO	SYNONYMOUS_CODING
SBS	Chr8	9601011	G-A	HOMO	INTERGENIC
SBS	Chr9	7323076	G-T	HET	INTERGENIC

Deletions: 23

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	3675595	3675597	2
Deletion	Chr2	3737987	3738018	31
Deletion	Chr3	4676879	4676880	1
Deletion	Chr5	6995679	6995684	5
Deletion	Chr8	7252135	7252141	6
Deletion	Chr11	7411144	7411156	12
Deletion	Chr11	9009252	9009258	6
Deletion	Chr12	9419001	9462000	43000	7
Deletion	Chr6	11099927	11099940	13
Deletion	Chr5	11409717	11409718	1
Deletion	Chr2	15374062	15377315	3253	LOC_Os02g26190
Deletion	Chr11	16505393	16505401	8
Deletion	Chr9	16789973	16789981	8
Deletion	Chr7	17812137	17812148	11
Deletion	Chr3	17848245	17938063	89818	12
Deletion	Chr10	18916355	18916359	4
Deletion	Chr11	19572903	19572928	25	LOC_Os11g33090
Deletion	Chr1	22198914	22198918	4
Deletion	Chr6	23053421	23053422	1
Deletion	Chr1	24266479	24266488	9	LOC_Os01g42660
Deletion	Chr12	26003544	26003574	30	LOC_Os12g41950
Deletion	Chr8	27610376	27610378	2
Deletion	Chr1	32353658	32353659	1	LOC_Os01g56190

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	7252336	7252337	2
Insertion	Chr2	20620935	20620936	2
Insertion	Chr2	73997	73997	1

No Inversion

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	18188690	Chr1	24253718
Translocation	Chr9	18195004	Chr1	24253734

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