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Mutant Information

Mutant Name	FN1460-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1460-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) = High (Between 126% and 175%) 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: 39

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15699809	T-C	Homo	INTERGENIC
SBS	Chr1	29012225	C-A	Homo	INTERGENIC
SBS	Chr1	3035611	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os01g06420
SBS	Chr1	36086947	G-A	HET	INTERGENIC
SBS	Chr10	11121868	G-A	Homo	INTERGENIC
SBS	Chr10	3666245	G-A	Homo	INTERGENIC
SBS	Chr10	7299059	C-A	Homo	INTRON
SBS	Chr11	14183016	G-A	Homo	INTERGENIC
SBS	Chr11	20967100	G-C	HET	INTERGENIC
SBS	Chr12	15000691	A-G	Homo	INTERGENIC
SBS	Chr12	16280821	G-T	Homo	INTERGENIC
SBS	Chr12	19171154	C-T	HET	INTERGENIC
SBS	Chr12	20952821	A-C	Homo	INTERGENIC
SBS	Chr12	23779575	G-A	HET	SYNONYMOUS_CODING
SBS	Chr12	3489740	C-A	Homo	INTERGENIC
SBS	Chr2	1289185	G-A	HET	UTR_3_PRIME
SBS	Chr2	17374452	T-C	HET	INTERGENIC
SBS	Chr2	22122948	G-A	Homo	INTRON
SBS	Chr2	23076808	T-C	HET	INTERGENIC
SBS	Chr2	24576746	A-G	HET	INTERGENIC
SBS	Chr2	4531914	C-T	HET	INTERGENIC
SBS	Chr2	7696012	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g14100
SBS	Chr2	7696013	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g14100
SBS	Chr3	21307348	A-T	HET	INTRON
SBS	Chr3	33137017	G-A	HET	INTERGENIC
SBS	Chr3	9964410	T-C	HET	INTERGENIC
SBS	Chr4	18330744	T-A	HET	INTERGENIC
SBS	Chr4	20376648	C-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os04g33640
SBS	Chr5	16614696	C-T	HET	INTERGENIC
SBS	Chr6	16595957	T-A	HET	INTRON
SBS	Chr6	20565593	G-A	HET	INTERGENIC
SBS	Chr6	6918182	G-A	HET	INTERGENIC
SBS	Chr6	8783323	T-A	HET	INTRON
SBS	Chr7	22213460	G-A	Homo	INTERGENIC
SBS	Chr7	5678098	C-T	HET	INTERGENIC
SBS	Chr8	10519098	C-T	HET	SYNONYMOUS_CODING
SBS	Chr8	7896779	T-C	HET	INTERGENIC
SBS	Chr8	9945948	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os08g16290
SBS	Chr9	1626726	C-T	HET	INTERGENIC

Deletions: 38

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	1589337	1589349	12
Deletion	Chr4	1642738	1642746	8
Deletion	Chr10	3457950	3457951	1
Deletion	Chr7	3504356	3504358	2
Deletion	Chr9	3764679	3764691	12
Deletion	Chr7	5278536	5278537	1	LOC_Os07g09914
Deletion	Chr9	7381533	7382390	857
Deletion	Chr9	7619161	7619162	1
Deletion	Chr12	8129747	8129755	8
Deletion	Chr4	8218524	8218525	1
Deletion	Chr10	10045377	10045416	39
Deletion	Chr3	10826814	10826818	4
Deletion	Chr8	10868944	10868945	1
Deletion	Chr4	10913456	10913460	4	LOC_Os04g19590
Deletion	Chr8	11573990	11573994	4	LOC_Os08g19350
Deletion	Chr1	12968345	12968354	9
Deletion	Chr8	13021215	13021218	3
Deletion	Chr8	13906595	13906596	1
Deletion	Chr4	14388540	14388541	1	LOC_Os04g24970
Deletion	Chr12	15044492	15044496	4
Deletion	Chr11	16954798	16954799	1
Deletion	Chr7	18000568	18000569	1
Deletion	Chr6	18852635	18852638	3
Deletion	Chr10	19190736	19190753	17	LOC_Os10g35920
Deletion	Chr6	19499788	19499789	1
Deletion	Chr3	20045257	20045259	2	LOC_Os03g36130
Deletion	Chr8	20398429	20398440	11	LOC_Os08g32890
Deletion	Chr10	21610178	21610179	1
Deletion	Chr10	22928038	22928048	10
Deletion	Chr3	24449645	24449646	1	LOC_Os03g43720
Deletion	Chr5	24601675	24601700	25
Deletion	Chr5	25660375	25660377	2
Deletion	Chr8	27577018	27577029	11	LOC_Os08g43600
Deletion	Chr8	27992744	27992757	13
Deletion	Chr4	29005859	29005860	1
Deletion	Chr3	31014835	31014848	13	LOC_Os03g54100
Deletion	Chr1	36131396	36131399	3
Deletion	Chr3	36326614	36326615	1

Insertions: 17

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	23427471	23427510	40
Insertion	Chr1	37570460	37570460	1
Insertion	Chr11	6666254	6666254	1
Insertion	Chr2	14198720	14198721	2
Insertion	Chr2	15120709	15120709	1
Insertion	Chr3	2118557	2118557	1
Insertion	Chr3	258096	258096	1
Insertion	Chr4	17041149	17041149	1
Insertion	Chr4	24675163	24675164	2
Insertion	Chr5	16222140	16222140	1
Insertion	Chr5	2076615	2076616	2
Insertion	Chr6	22761195	22761197	3	LOC_Os06g38420
Insertion	Chr7	19482220	19482224	5
Insertion	Chr7	24574911	24574911	1
Insertion	Chr8	10448428	10448428	1	LOC_Os08g17070
Insertion	Chr9	10653980	10653980	1
Insertion	Chr9	1118000	1118000	1

No Inversion

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr7	1808062	Chr3	28241822	LOC_Os03g49600

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