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Mutant Information

Mutant Name	FN1643-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1643-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: 32

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12624972	C-G	Homo	INTERGENIC
SBS	Chr2	28078700	T-C	HET	INTERGENIC
SBS	Chr2	32764606	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os02g53550
SBS	Chr3	9747761	T-C	HET	UTR_3_PRIME
SBS	Chr3	11535767	T-A	HET	INTERGENIC
SBS	Chr3	17695303	T-A	Homo	INTERGENIC
SBS	Chr3	19977181	C-T	HET	INTERGENIC
SBS	Chr4	3942177	C-A	HET	INTERGENIC
SBS	Chr4	9968070	T-A	HET	SYNONYMOUS_CODING
SBS	Chr4	19997521	A-T	HET	INTERGENIC
SBS	Chr4	21783113	G-A	HET	INTERGENIC
SBS	Chr6	1143053	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g03090
SBS	Chr6	1143055	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g03090
SBS	Chr6	14721161	G-A	Homo	STOP_GAINED	LOC_Os06g25160
SBS	Chr6	16196322	A-T	Homo	INTERGENIC
SBS	Chr6	24321462	T-C	Homo	INTERGENIC
SBS	Chr7	3566915	A-T	HET	INTRON
SBS	Chr7	12400829	G-A	HET	INTERGENIC
SBS	Chr7	15796414	C-T	HET	INTERGENIC
SBS	Chr7	24782346	A-T	HET	INTERGENIC
SBS	Chr9	5495450	G-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os09g10080
SBS	Chr9	9593480	C-A	Homo	INTERGENIC
SBS	Chr9	14756658	G-A	HET	SYNONYMOUS_CODING
SBS	Chr10	13550943	T-C	Homo	INTRON
SBS	Chr10	15446396	T-C	Homo	INTERGENIC
SBS	Chr11	11477660	G-A	Homo	INTERGENIC
SBS	Chr11	23768054	C-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os11g39870
SBS	Chr12	9258164	G-T	HET	INTERGENIC
SBS	Chr12	14481630	G-C	HET	INTERGENIC
SBS	Chr12	14481631	G-T	HET	INTERGENIC
SBS	Chr12	17634884	C-T	HET	INTERGENIC
SBS	Chr12	17668506	G-A	HET	INTERGENIC

Deletions: 34

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	45255	45833	578	LOC_Os01g01090
Deletion	Chr2	417028	417043	15	LOC_Os02g01740
Deletion	Chr8	928388	928390	2
Deletion	Chr8	3021639	3021647	8	LOC_Os08g05650
Deletion	Chr7	3833363	3833369	6
Deletion	Chr7	5511122	5511128	6
Deletion	Chr5	5999772	5999775	3
Deletion	Chr11	7032097	7032098	1
Deletion	Chr2	7620099	7620106	7	LOC_Os02g13965
Deletion	Chr7	9049001	9551000	502000	65
Deletion	Chr7	9553001	9860000	307000	44
Deletion	Chr7	9626714	9626719	5	LOC_Os07g16430
Deletion	Chr4	9927191	9927206	15	LOC_Os04g18020
Deletion	Chr8	14042157	14042164	7
Deletion	Chr2	14555177	14555197	20	LOC_Os02g25070
Deletion	Chr1	15591773	15591792	19
Deletion	Chr5	16627534	16627539	5
Deletion	Chr10	16636909	16636918	9
Deletion	Chr8	18593791	18593813	22	LOC_Os08g30250
Deletion	Chr12	18617257	18617258	1
Deletion	Chr10	18630221	18630329	108
Deletion	Chr8	18984781	18984785	4
Deletion	Chr11	19355565	19355581	16	2
Deletion	Chr7	19744961	19744962	1
Deletion	Chr4	20179510	20179511	1
Deletion	Chr11	20276090	20276091	1
Deletion	Chr4	21253865	21253893	28
Deletion	Chr7	22327546	22327547	1
Deletion	Chr5	25935287	25935288	1	LOC_Os05g44570
Deletion	Chr7	26435306	26435308	2
Deletion	Chr12	27048572	27048579	7
Deletion	Chr2	27759939	27759942	3
Deletion	Chr2	35043532	35043540	8
Deletion	Chr4	35074674	35074677	3	LOC_Os04g58960

Insertions: 9

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	20477927	20477928	2
Insertion	Chr2	20405050	20405063	14
Insertion	Chr2	24564784	24564846	63
Insertion	Chr3	4217165	4217165	1	LOC_Os03g08284
Insertion	Chr5	14565839	14565839	1
Insertion	Chr6	21869148	21869148	1
Insertion	Chr7	5994282	5994282	1
Insertion	Chr9	22585868	22585868	1	LOC_Os09g39290
Insertion	Chr11	7577151	7577158	8

No Inversion

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	12145847	Chr8	28305112	LOC_Os08g45080
Translocation	Chr9	16737914	Chr7	1125155	LOC_Os09g27540

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