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Mutant Information

Mutant Name	FN1299-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1299-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Low (Between 25% and 74%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 29

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	14821468	C-G	HOMO	INTRON
SBS	Chr1	9820503	T-C	HOMO	INTRON
SBS	Chr10	3496193	A-T	HOMO	INTERGENIC
SBS	Chr11	11187076	G-A	HET	INTERGENIC
SBS	Chr11	13641852	C-A	HET	INTERGENIC
SBS	Chr11	22005361	A-G	HOMO	INTRON
SBS	Chr11	5967786	T-A	HET	SYNONYMOUS_CODING
SBS	Chr12	16953281	T-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g28690
SBS	Chr12	23029151	T-C	HOMO	INTERGENIC
SBS	Chr2	17382526	C-T	HET	INTERGENIC
SBS	Chr2	24877643	G-A	HET	INTERGENIC
SBS	Chr2	29368572	G-C	HOMO	INTERGENIC
SBS	Chr3	15732211	A-G	HET	INTERGENIC
SBS	Chr3	18932833	A-G	HET	INTERGENIC
SBS	Chr3	3185424	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g06360
SBS	Chr4	17477823	G-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g29400
SBS	Chr5	11502226	G-C	HET	INTERGENIC
SBS	Chr6	14978652	C-A	HET	INTERGENIC
SBS	Chr6	14978653	G-A	HET	INTERGENIC
SBS	Chr6	3639442	G-A	HOMO	UTR_3_PRIME
SBS	Chr6	3639443	T-A	HOMO	UTR_3_PRIME
SBS	Chr6	7058476	T-A	HET	INTERGENIC
SBS	Chr7	17757972	G-A	HOMO	INTERGENIC
SBS	Chr8	21520951	A-T	HOMO	INTERGENIC
SBS	Chr8	24555785	T-C	HET	INTERGENIC
SBS	Chr8	9549708	A-T	HET	INTERGENIC
SBS	Chr9	10118804	T-C	HET	INTERGENIC
SBS	Chr9	14459956	A-G	HOMO	INTERGENIC
SBS	Chr9	17629748	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g29000

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr7	558639	558643	4
Deletion	Chr11	701843	701847	4	LOC_Os11g02379
Deletion	Chr10	4364065	4364082	17
Deletion	Chr8	5168013	5168051	38
Deletion	Chr3	6978408	6978413	5
Deletion	Chr10	11363198	11363207	9
Deletion	Chr10	14655098	14655129	31
Deletion	Chr1	14749466	14749468	2	LOC_Os01g26010
Deletion	Chr10	16425306	16425312	6
Deletion	Chr3	17275321	17275334	13
Deletion	Chr6	17555345	17555350	5
Deletion	Chr9	18919143	18919145	2	LOC_Os09g31438
Deletion	Chr3	23512249	23512250	1
Deletion	Chr6	24201190	24201194	4
Deletion	Chr7	27175836	27175842	6
Deletion	Chr3	31184462	31184478	16
Deletion	Chr2	32271450	32271792	342
Deletion	Chr3	34002060	34002061	1
Deletion	Chr1	34134621	34134622	1

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr12	11007901	11007902	2
Insertion	Chr12	25431179	25431179	1
Insertion	Chr3	26045326	26045326	1
Insertion	Chr3	4809160	4809160	1
Insertion	Chr8	11243534	11243535	2
Insertion	Chr8	7835462	7835463	2	LOC_Os08g13180

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	21908475	22284692	LOC_Os05g37434
Inversion	Chr5	21908500	22284691	LOC_Os05g37434
Inversion	Chr6	24467260	24986494	LOC_Os06g41700
Inversion	Chr6	24878229	24986498	2

No Translocation

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