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Mutant Information

Mutant Name	FN709-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN709-S 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
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 21

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	23627748	G-A	HOMO	INTERGENIC
SBS	Chr1	24892908	C-T	HET	INTERGENIC
SBS	Chr2	23272443	T-A	HET	INTERGENIC
SBS	Chr3	24849780	G-A	HET	INTERGENIC
SBS	Chr3	25785813	C-G	HOMO	INTERGENIC
SBS	Chr3	28580980	A-T	HOMO	INTERGENIC
SBS	Chr6	3040128	A-G	HET	UTR_3_PRIME
SBS	Chr6	3717452	G-A	HOMO	INTERGENIC
SBS	Chr7	2458484	T-G	HOMO	UTR_3_PRIME
SBS	Chr7	4590156	C-A	HET	INTRON
SBS	Chr7	6855077	A-T	HET	INTERGENIC
SBS	Chr8	9601011	G-A	HOMO	INTERGENIC
SBS	Chr8	11002016	G-A	HOMO	INTERGENIC
SBS	Chr9	11792668	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g19700
SBS	Chr9	11792669	T-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g19700
SBS	Chr9	15572200	G-A	HOMO	INTERGENIC
SBS	Chr9	18500284	C-G	HET	UTR_5_PRIME
SBS	Chr9	18500352	A-T	HET	START_GAINED	LOC_Os09g30400
SBS	Chr9	18500378	C-T	HET	UTR_5_PRIME
SBS	Chr11	18434826	T-A	HET	INTERGENIC
SBS	Chr11	18434827	T-A	HET	INTERGENIC

Deletions: 27

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	444058	444070	12
Deletion	Chr4	1294584	1294590	6	LOC_Os04g03110
Deletion	Chr7	2659734	2659758	24
Deletion	Chr7	4126808	4126809	1
Deletion	Chr7	5144251	5144268	17
Deletion	Chr4	5631717	5631748	31
Deletion	Chr7	6862969	6862972	3
Deletion	Chr8	7697371	7697372	1
Deletion	Chr7	8389968	8389981	13
Deletion	Chr10	8685208	8685343	135	LOC_Os10g17270
Deletion	Chr4	12690001	12715000	25000	7
Deletion	Chr4	17500078	17500090	12
Deletion	Chr2	18316218	18316219	1
Deletion	Chr11	18411278	18411282	4	LOC_Os11g31500
Deletion	Chr12	19566560	19566593	33
Deletion	Chr2	20410001	20518000	108000	17
Deletion	Chr2	20529001	20579000	50000	9
Deletion	Chr8	22186414	22186422	8
Deletion	Chr5	22483209	22483211	2
Deletion	Chr8	24758300	24758307	7	LOC_Os08g39174
Deletion	Chr7	25563200	25563201	1
Deletion	Chr8	25651747	25651748	1
Deletion	Chr12	25884755	25884757	2	LOC_Os12g41780
Deletion	Chr4	26364793	26364800	7	LOC_Os04g44530
Deletion	Chr4	26364797	26364804	7	LOC_Os04g44530
Deletion	Chr11	28814121	28814145	24	LOC_Os11g47780
Deletion	Chr1	41210900	41210901	1

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr6	2216295	2216296	2
Insertion	Chr1	5703414	5703416	3
Insertion	Chr2	73997	73997	1
Insertion	Chr6	29560522	29560522	1
Insertion	Chr8	957501	957501	1

No Inversion

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr4	11340736	Chr1	7494552
Translocation	Chr9	13442818	Chr3	15242059	2

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