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Mutant Information

Mutant Name	FN792-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN792-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: 30

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4673747	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g09246
SBS	Chr1	9186814	T-C	HOMO	INTERGENIC
SBS	Chr1	41189752	C-T	HOMO	INTERGENIC
SBS	Chr2	14155009	C-G	HET	INTERGENIC
SBS	Chr2	27679910	G-C	HET	INTERGENIC
SBS	Chr2	28611422	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g46900
SBS	Chr3	3374650	G-T	HET	INTERGENIC
SBS	Chr3	8367188	A-C	HET	INTERGENIC
SBS	Chr4	5746793	T-C	HET	INTERGENIC
SBS	Chr4	21665147	G-A	HOMO	INTERGENIC
SBS	Chr5	6519464	T-A	HOMO	INTERGENIC
SBS	Chr5	19631972	T-C	HET	UTR_5_PRIME
SBS	Chr5	20209434	A-G	HET	INTERGENIC
SBS	Chr5	26765296	A-C	HOMO	INTERGENIC
SBS	Chr6	7142948	A-T	HET	INTERGENIC
SBS	Chr6	12318935	G-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os06g21330
SBS	Chr7	9320562	T-A	HET	INTERGENIC
SBS	Chr7	16646688	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os07g28450
SBS	Chr7	17070080	T-A	HOMO	INTERGENIC
SBS	Chr7	18984209	A-T	HOMO	INTERGENIC
SBS	Chr7	22824908	A-G	HET	INTERGENIC
SBS	Chr7	22858617	C-T	HET	UTR_3_PRIME
SBS	Chr9	2965125	G-A	HET	INTERGENIC
SBS	Chr9	2965127	G-T	HET	INTERGENIC
SBS	Chr9	5168731	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g09580
SBS	Chr9	6824598	T-G	HET	INTERGENIC
SBS	Chr9	18932689	A-T	HET	INTERGENIC
SBS	Chr10	18097422	G-T	HET	INTERGENIC
SBS	Chr11	18127686	G-A	HET	INTERGENIC
SBS	Chr12	3387662	T-C	HET	INTERGENIC

Deletions: 9

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	1383895	1383897	2
Deletion	Chr4	3442194	3442196	2
Deletion	Chr9	14647813	14647836	23
Deletion	Chr5	14652931	14652942	11
Deletion	Chr10	17470366	17470378	12
Deletion	Chr4	19347831	19347866	35
Deletion	Chr2	21032754	21032762	8
Deletion	Chr11	22080585	22080595	10
Deletion	Chr2	34265961	34268752	2791	LOC_Os02g56000

Insertions: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr11	4454852	4454852	1

No Inversion

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	8693695	Chr2	34268757	LOC_Os02g56000
Translocation	Chr12	8693705	Chr2	34265975	LOC_Os02g56000
Translocation	Chr12	9457507	Chr6	11526320	LOC_Os06g20090
Translocation	Chr12	9457949	Chr6	11526318	LOC_Os06g20090

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