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Mutant Information

Mutant Name	FN1258-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1258-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Low (Between 25% and 74%) 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: 32

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	36853369	A-T	HET	INTERGENIC
SBS	Chr1	4580688	C-A	HET	INTERGENIC
SBS	Chr1	8701008	G-A	HET	INTERGENIC
SBS	Chr10	11927853	G-T	HET	INTERGENIC
SBS	Chr10	7883421	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os10g15060
SBS	Chr11	25229965	C-T	HET	INTERGENIC
SBS	Chr11	2617955	T-A	HET	INTERGENIC
SBS	Chr12	18045129	C-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g30120
SBS	Chr2	24662479	C-A	HET	INTERGENIC
SBS	Chr2	9109901	C-A	HET	INTRON
SBS	Chr3	18239542	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g31880
SBS	Chr3	2205421	G-A	HOMO	INTERGENIC
SBS	Chr3	33029503	C-T	HET	INTERGENIC
SBS	Chr3	3849135	G-A	HOMO	INTERGENIC
SBS	Chr4	14155898	G-A	HOMO	INTERGENIC
SBS	Chr4	21324818	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr4	21324822	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g35080
SBS	Chr4	2155663	C-T	HET	INTERGENIC
SBS	Chr4	9081809	G-C	HOMO	INTRON
SBS	Chr5	14967461	A-T	HET	INTERGENIC
SBS	Chr5	22965347	C-T	HET	INTERGENIC
SBS	Chr5	26462003	G-A	HET	INTERGENIC
SBS	Chr5	4082372	C-T	HOMO	INTERGENIC
SBS	Chr5	8720311	A-T	HET	INTERGENIC
SBS	Chr6	8256701	G-A	HET	SYNONYMOUS_CODING
SBS	Chr7	18151365	G-C	HET	INTERGENIC
SBS	Chr8	24152418	G-C	HET	INTERGENIC
SBS	Chr8	24708051	T-C	HET	INTERGENIC
SBS	Chr8	406748	G-T	HET	INTERGENIC
SBS	Chr9	3427107	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g07070
SBS	Chr9	3427108	T-C	HET	SYNONYMOUS_CODING
SBS	Chr9	7897886	A-G	HOMO	INTERGENIC

Deletions: 27

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	702768	702773	5
Deletion	Chr12	1235460	1235484	24
Deletion	Chr5	3122092	3122105	13	LOC_Os05g06200
Deletion	Chr11	3434537	3434539	2
Deletion	Chr4	3703161	3703163	2
Deletion	Chr11	3828535	3828544	9
Deletion	Chr3	3848901	3848912	11
Deletion	Chr4	5107588	5107589	1
Deletion	Chr8	5586401	5586402	1
Deletion	Chr10	6259016	6259020	4	LOC_Os10g11280
Deletion	Chr12	6810152	6810160	8
Deletion	Chr10	8506001	8664000	158000	21
Deletion	Chr12	12465494	12465516	22
Deletion	Chr6	13772548	13777419	4871	3
Deletion	Chr9	14001163	14001187	24
Deletion	Chr3	14495324	14495326	2
Deletion	Chr7	14716916	14716927	11
Deletion	Chr5	17538135	17538142	7	LOC_Os05g30260
Deletion	Chr11	18092514	18092531	17
Deletion	Chr4	18971011	18971035	24
Deletion	Chr2	19617462	19617472	10
Deletion	Chr4	22785153	22785162	9	LOC_Os04g38290
Deletion	Chr4	23829802	23829803	1	LOC_Os04g40040
Deletion	Chr8	25035215	25035216	1	LOC_Os08g39570
Deletion	Chr2	29362956	29362959	3
Deletion	Chr2	35623982	35624001	19
Deletion	Chr1	41648714	41648722	8

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr10	13040938	13040944	7
Insertion	Chr4	21130579	21130580	2
Insertion	Chr8	16438848	16438855	8

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	2429077	2483020	LOC_Os10g05069
Inversion	Chr5	12316646	14105156	LOC_Os05g24410
Inversion	Chr5	13819941	14105142	2

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	986725	Chr2	32475676	2
Translocation	Chr12	15304618	Chr4	1265206
Translocation	Chr11	19390024	Chr3	4264017
Translocation	Chr5	22550101	Chr3	23592967

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