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Mutant Information

Mutant Name	FN1316-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1316-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: 20

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	21544216	T-A	HOMO	INTRON
SBS	Chr1	21544217	C-A	HOMO	INTRON
SBS	Chr10	18941317	C-T	HOMO	UTR_3_PRIME
SBS	Chr11	15104297	T-C	HET	INTRON
SBS	Chr12	1898014	C-T	HOMO	INTRON
SBS	Chr12	21068215	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g34700
SBS	Chr2	10119914	A-C	HET	INTERGENIC
SBS	Chr2	23550790	C-T	HOMO	INTRON
SBS	Chr3	30022527	G-T	HET	INTERGENIC
SBS	Chr3	32364484	C-T	HOMO	INTERGENIC
SBS	Chr3	4775058	T-C	HOMO	INTERGENIC
SBS	Chr4	14526659	G-C	HOMO	INTRON
SBS	Chr4	14526660	C-A	HOMO	INTRON
SBS	Chr4	16600183	T-C	HOMO	INTERGENIC
SBS	Chr5	29304509	A-T	HOMO	INTERGENIC
SBS	Chr6	22816759	C-T	HET	INTERGENIC
SBS	Chr6	23515566	T-A	HOMO	INTERGENIC
SBS	Chr6	23515567	C-A	HOMO	INTERGENIC
SBS	Chr7	10116851	T-G	HOMO	INTERGENIC
SBS	Chr8	2275999	A-T	HET	INTERGENIC

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr2	74529	74530	1
Deletion	Chr2	1000790	1000799	9
Deletion	Chr7	6543631	6543637	6
Deletion	Chr2	6544245	6544252	7
Deletion	Chr2	7577993	7578008	15
Deletion	Chr12	9736493	9736498	5
Deletion	Chr11	10106326	10106335	9
Deletion	Chr1	10620887	10620894	7
Deletion	Chr1	12519497	12519499	2
Deletion	Chr1	12901853	12901863	10
Deletion	Chr2	13017455	13022471	5016
Deletion	Chr6	16040876	16040878	2
Deletion	Chr2	18000015	18000034	19
Deletion	Chr2	18072275	18072284	9	LOC_Os02g30340
Deletion	Chr1	19354436	19354437	1	LOC_Os01g34970
Deletion	Chr7	20753760	20753762	2
Deletion	Chr1	27176743	27176763	20	LOC_Os01g47530
Deletion	Chr1	27542001	27604000	62000	9
Deletion	Chr1	28205841	28206424	583

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr11	27394536	27394537	2
Insertion	Chr2	35177082	35177083	2

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	4414078	4643191
Inversion	Chr1	6529602	24146913	2

Translocations: 8

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr4	5065480	Chr1	27601757	2
Translocation	Chr9	11173885	Chr1	10717180	LOC_Os09g18230
Translocation	Chr9	11199794	Chr1	10717175	LOC_Os09g18240
Translocation	Chr2	13017482	Chr1	27541659
Translocation	Chr2	13017638	Chr1	27602890	LOC_Os01g48190
Translocation	Chr9	16737926	Chr7	1125153	LOC_Os09g27540
Translocation	Chr7	26535632	Chr1	24149462
Translocation	Chr7	26535656	Chr1	6531153	LOC_Os01g11990

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