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Mutant Information

Mutant Name	FN874-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN874-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: 41

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10442250	A-G	HET	INTERGENIC
SBS	Chr1	13207556	G-A	HET	INTERGENIC
SBS	Chr1	16621120	C-T	HET	INTERGENIC
SBS	Chr10	7958399	T-G	HET	INTRON
SBS	Chr10	8384702	G-C	HET	INTRON
SBS	Chr11	13331718	A-G	HOMO	INTERGENIC
SBS	Chr11	14480752	G-A	HOMO	INTRON
SBS	Chr11	15863252	C-T	HOMO	INTERGENIC
SBS	Chr11	22797420	C-A	HET	INTERGENIC
SBS	Chr11	3430711	T-C	HOMO	INTRON
SBS	Chr12	26806536	C-G	HET	UTR_5_PRIME
SBS	Chr12	5564972	T-C	HOMO	INTERGENIC
SBS	Chr12	9096796	C-T	HET	INTERGENIC
SBS	Chr2	10199560	T-A	HET	INTRON
SBS	Chr2	11385050	C-T	HET	INTERGENIC
SBS	Chr2	20761415	A-T	HET	INTERGENIC
SBS	Chr2	21644776	G-A	HET	INTRON
SBS	Chr2	24656822	A-C	HET	INTERGENIC
SBS	Chr2	30369138	C-A	HET	INTERGENIC
SBS	Chr2	30373141	A-C	HET	INTERGENIC
SBS	Chr2	4676840	G-A	HET	INTERGENIC
SBS	Chr2	4823894	G-A	HET	INTERGENIC
SBS	Chr3	1838424	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g04030
SBS	Chr4	15325223	C-A	HET	STOP_GAINED	LOC_Os04g26290
SBS	Chr4	1605980	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr4	19045630	C-T	HOMO	INTRON
SBS	Chr4	28714245	G-T	HOMO	INTERGENIC
SBS	Chr4	4378758	A-T	HOMO	INTERGENIC
SBS	Chr5	10350035	A-C	HOMO	INTRON
SBS	Chr5	25097864	C-T	HOMO	INTERGENIC
SBS	Chr5	28875115	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os05g50380
SBS	Chr5	67311	T-A	HET	INTRON
SBS	Chr6	25778143	G-A	HET	INTERGENIC
SBS	Chr6	6255635	C-T	HOMO	INTERGENIC
SBS	Chr6	6255636	G-T	HOMO	INTERGENIC
SBS	Chr7	14220357	G-A	HET	INTERGENIC
SBS	Chr7	16865512	C-T	HET	INTRON
SBS	Chr7	16869100	A-G	HET	UTR_3_PRIME
SBS	Chr7	7101964	C-A	HET	INTERGENIC
SBS	Chr8	12530941	T-G	HET	INTERGENIC
SBS	Chr9	9227551	T-C	HOMO	INTERGENIC

Deletions: 20

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	1776468	1776508	40	LOC_Os03g03900
Deletion	Chr3	4316789	4316802	13
Deletion	Chr9	9906706	9906707	1
Deletion	Chr7	11116628	11116637	9
Deletion	Chr8	12406568	12406571	3
Deletion	Chr9	13835705	13835714	9
Deletion	Chr6	14507639	14507649	10
Deletion	Chr3	14591687	14591702	15
Deletion	Chr6	14606073	14606090	17
Deletion	Chr7	14927863	14927873	10
Deletion	Chr8	16214001	16303000	89000	14
Deletion	Chr8	16240652	16261085	20433	3
Deletion	Chr8	16306849	16306858	9
Deletion	Chr3	19925063	19925076	13
Deletion	Chr4	21131935	21131937	2
Deletion	Chr2	21307904	21307914	10
Deletion	Chr1	22475001	22687000	212000	32
Deletion	Chr8	24627845	24627850	5
Deletion	Chr4	32631509	32631514	5
Deletion	Chr1	41988472	41988603	131	LOC_Os01g72390

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	23388667	23388667	1
Insertion	Chr3	12521450	12521450	1
Insertion	Chr4	16564311	16564332	22

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	11690392	22687250	2
Inversion	Chr9	17382604	17747341	2
Inversion	Chr3	35283293	36169206	LOC_Os03g63990
Inversion	Chr3	35283304	35324960

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	2691428	Chr6	14189667
Translocation	Chr2	15723259	Chr1	9625513	LOC_Os02g26780
Translocation	Chr11	27773717	Chr6	8926366	LOC_Os06g15740

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