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Mutant Information

Mutant Name	FN1617-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1617-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: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: 40

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	26244124	A-T	HET	INTERGENIC
SBS	Chr1	29323403	C-A	HET	SYNONYMOUS_CODING
SBS	Chr1	34587426	C-T	Homo	INTERGENIC
SBS	Chr1	41827538	G-A	HET	INTERGENIC
SBS	Chr11	11492226	C-T	HET	SYNONYMOUS_CODING
SBS	Chr11	14318408	C-G	Homo	INTERGENIC
SBS	Chr11	23000969	T-A	Homo	INTERGENIC
SBS	Chr11	23000970	T-A	Homo	INTERGENIC
SBS	Chr12	16756382	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os12g28330
SBS	Chr12	21252615	A-G	HET	INTERGENIC
SBS	Chr12	4238928	G-A	HET	INTERGENIC
SBS	Chr2	21090153	T-C	Homo	INTERGENIC
SBS	Chr2	27197808	G-A	HET	INTERGENIC
SBS	Chr3	14336058	C-A	HET	INTERGENIC
SBS	Chr3	16105416	C-T	Homo	STOP_GAINED	LOC_Os03g28020
SBS	Chr3	18101646	A-G	HET	INTERGENIC
SBS	Chr3	2214559	A-G	HET	INTERGENIC
SBS	Chr3	24230687	G-T	Homo	INTERGENIC
SBS	Chr3	33683797	C-G	HET	INTRON
SBS	Chr4	10889671	G-A	HET	SYNONYMOUS_CODING
SBS	Chr4	2372159	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os04g04914
SBS	Chr4	23739206	A-C	HET	INTRON
SBS	Chr4	9014862	G-A	HET	INTERGENIC
SBS	Chr5	2699176	G-A	HET	INTERGENIC
SBS	Chr5	27610245	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g48170
SBS	Chr5	28116512	C-A	Homo	INTERGENIC
SBS	Chr5	3492547	C-T	HET	INTERGENIC
SBS	Chr6	13653659	A-G	HET	INTERGENIC
SBS	Chr7	10574466	C-T	HET	INTERGENIC
SBS	Chr7	19341461	G-A	HET	INTERGENIC
SBS	Chr7	24405229	C-G	HET	INTRON
SBS	Chr7	29495753	A-G	HET	INTERGENIC
SBS	Chr7	6795312	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g12140
SBS	Chr8	14026605	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g23230
SBS	Chr8	5683258	C-T	HET	INTERGENIC
SBS	Chr9	11234113	T-C	HET	INTERGENIC
SBS	Chr9	1992724	C-T	HET	INTRON
SBS	Chr9	20848685	A-G	HET	INTERGENIC
SBS	Chr9	3455563	T-A	HET	INTERGENIC
SBS	Chr9	5000671	C-T	HET	INTERGENIC

Deletions: 31

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	750802	750804	2	LOC_Os08g02204
Deletion	Chr12	4000534	4007515	6981	2
Deletion	Chr3	4421687	4421688	1
Deletion	Chr6	5806532	5806557	25
Deletion	Chr4	6460453	6460454	1
Deletion	Chr1	7486635	7486636	1
Deletion	Chr7	7797921	7797922	1
Deletion	Chr6	8338915	8338918	3
Deletion	Chr12	9640589	9640590	1
Deletion	Chr2	11913615	11913616	1
Deletion	Chr10	13123027	13123031	4
Deletion	Chr1	13673150	13673196	46
Deletion	Chr4	14006466	14006468	2
Deletion	Chr3	14226001	14316000	90000	12
Deletion	Chr1	15227828	15227829	1
Deletion	Chr1	15807036	15807041	5
Deletion	Chr11	16606113	16606122	9
Deletion	Chr4	17197780	17197782	2
Deletion	Chr6	17913709	17913710	1
Deletion	Chr3	19009001	19009013	12
Deletion	Chr7	20518301	20518350	49
Deletion	Chr5	21963316	21963321	5
Deletion	Chr10	22174105	22174110	5
Deletion	Chr9	22892231	22892232	1
Deletion	Chr5	22922439	22923060	621
Deletion	Chr12	26252926	26252945	19
Deletion	Chr2	27241890	27241891	1	LOC_Os02g44975
Deletion	Chr5	27770559	27770566	7
Deletion	Chr3	28442153	28442154	1
Deletion	Chr7	29495747	29495748	1
Deletion	Chr1	37279013	37279029	16	LOC_Os01g64190

Insertions: 13

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	23960258	23960263	6	LOC_Os01g42270
Insertion	Chr1	29615782	29615797	16
Insertion	Chr1	5223729	5223729	1
Insertion	Chr10	6182237	6182237	1
Insertion	Chr10	7629684	7629687	4
Insertion	Chr12	24348928	24348928	1
Insertion	Chr2	1864451	1864451	1	LOC_Os02g04240
Insertion	Chr4	32903332	32903332	1
Insertion	Chr5	12017251	12017271	21
Insertion	Chr6	5201317	5201318	2
Insertion	Chr6	5767785	5767798	14
Insertion	Chr7	4124573	4124574	2
Insertion	Chr9	11057437	11057465	29

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	11834017	29552990

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	5281345	Chr7	5459882
Translocation	Chr9	14643606	Chr7	2367382
Translocation	Chr10	15057021	Chr3	14226468
Translocation	Chr10	15057823	Chr3	14316455	LOC_Os03g25070
Translocation	Chr4	23739020	Chr3	6420341	2
Translocation	Chr4	23739026	Chr3	6412010	LOC_Os04g39864

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