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Mutant Information

Mutant Name	FN835-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN835-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) 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	9780798	C-T	HET	INTERGENIC
SBS	Chr1	10266703	C-T	HET	INTRON
SBS	Chr1	13985196	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g24830
SBS	Chr1	25080822	C-A	HOMO	INTERGENIC
SBS	Chr1	28886094	G-C	HET	INTRON
SBS	Chr1	30809162	C-T	HET	INTERGENIC
SBS	Chr1	31457913	C-T	HET	INTERGENIC
SBS	Chr2	12046463	C-T	HET	INTRON
SBS	Chr2	16690944	G-A	HOMO	INTERGENIC
SBS	Chr3	17779826	A-G	HET	INTERGENIC
SBS	Chr3	24374368	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g43610
SBS	Chr3	34565099	G-A	HET	INTERGENIC
SBS	Chr4	9755681	G-A	HET	INTERGENIC
SBS	Chr4	10820887	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os04g19420
SBS	Chr4	14537431	A-G	HET	INTERGENIC
SBS	Chr4	19645806	G-A	HET	INTERGENIC
SBS	Chr5	1306373	T-C	HET	INTERGENIC
SBS	Chr5	11601972	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g19900
SBS	Chr5	16398336	G-A	HET	INTERGENIC
SBS	Chr5	19144926	G-A	HET	INTERGENIC
SBS	Chr6	3117597	C-T	HET	INTERGENIC
SBS	Chr6	3649030	T-C	HOMO	INTERGENIC
SBS	Chr6	27766479	A-T	HET	INTERGENIC
SBS	Chr7	8112368	G-C	HET	INTERGENIC
SBS	Chr7	17066991	C-T	HET	INTERGENIC
SBS	Chr8	6115934	C-T	HET	INTERGENIC
SBS	Chr8	12027948	G-A	HET	SYNONYMOUS_CODING
SBS	Chr8	18230854	A-G	HOMO	INTRON
SBS	Chr8	27212142	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g43060
SBS	Chr9	4648015	C-G	HET	INTERGENIC
SBS	Chr9	5897478	G-A	HOMO	INTERGENIC
SBS	Chr9	5994745	T-G	HOMO	INTRON
SBS	Chr9	8494703	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g14380
SBS	Chr9	19737819	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os09g33480
SBS	Chr10	3192086	G-A	HET	INTERGENIC
SBS	Chr10	7935575	T-G	HOMO	INTERGENIC
SBS	Chr10	16761580	G-T	HOMO	INTERGENIC
SBS	Chr11	12643181	C-T	HET	INTERGENIC
SBS	Chr11	14905592	T-A	HOMO	INTERGENIC
SBS	Chr11	18680744	C-T	HET	INTERGENIC
SBS	Chr11	25722508	A-G	HET	INTERGENIC

Deletions: 25

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	969107	969119	12
Deletion	Chr10	1165337	1165340	3
Deletion	Chr6	2635694	2635698	4
Deletion	Chr4	3422418	3422419	1
Deletion	Chr8	4903508	4903509	1
Deletion	Chr3	5282317	5282319	2
Deletion	Chr8	5719648	5719657	9
Deletion	Chr8	5753475	5753489	14
Deletion	Chr11	7327246	7327257	11
Deletion	Chr9	8625001	8665000	40000	6
Deletion	Chr7	9530001	9710000	180000	23
Deletion	Chr7	10746417	10746424	7
Deletion	Chr9	11917331	11917337	6	LOC_Os09g19920
Deletion	Chr9	12232001	12282000	50000	4
Deletion	Chr11	13353866	13353871	5
Deletion	Chr8	13679065	13679068	3	LOC_Os08g22750
Deletion	Chr3	14081747	14081751	4
Deletion	Chr11	16210606	16210658	52
Deletion	Chr11	17132852	17132862	10
Deletion	Chr3	17593408	17593411	3
Deletion	Chr11	24900677	24900680	3
Deletion	Chr4	25305623	25305627	4
Deletion	Chr7	25393351	25393425	74	LOC_Os07g42420
Deletion	Chr1	26658400	26658416	16
Deletion	Chr3	30526747	30526763	16

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr7	28173836	28173836	1
Insertion	Chr8	23008681	23008681	1
Insertion	Chr2	35278281	35278282	2	LOC_Os02g57600
Insertion	Chr9	5009001	5009004	4
Insertion	Chr11	5201898	5201899	2
Insertion	Chr5	3542560	3542560	1

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	7908327	7997459
Inversion	Chr9	8507407	8627632
Inversion	Chr9	18143750	18283657	2
Inversion	Chr9	18283663	18317259	2

No Translocation

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