Search Nipponbare

Mutant Information

Mutant Name	FN513-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN513-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Very Low (Below 24%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 27

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	19158079	A-T	HET	INTERGENIC
SBS	Chr1	35149900	C-G	HOMO	INTRON
SBS	Chr11	9691924	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os11g17380
SBS	Chr12	5727367	G-C	HET	INTERGENIC
SBS	Chr2	11781793	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g20010
SBS	Chr2	14454255	A-C	HET	INTERGENIC
SBS	Chr2	30187876	C-A	HET	INTRON
SBS	Chr3	18704438	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g32650
SBS	Chr3	26639492	A-G	HOMO	INTERGENIC
SBS	Chr3	272783	A-G	HET	UTR_3_PRIME
SBS	Chr3	29301829	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr4	15971012	C-A	HET	INTERGENIC
SBS	Chr4	27861517	C-T	HET	INTERGENIC
SBS	Chr5	23713355	C-T	HET	INTERGENIC
SBS	Chr5	28673894	T-C	HET	INTERGENIC
SBS	Chr6	18089296	T-A	HET	INTERGENIC
SBS	Chr6	18089297	A-T	HET	INTERGENIC
SBS	Chr6	28033817	T-A	HET	INTERGENIC
SBS	Chr6	6495093	G-C	HET	UTR_3_PRIME
SBS	Chr6	7712929	C-T	HET	INTERGENIC
SBS	Chr7	13578438	G-A	HET	INTERGENIC
SBS	Chr8	14026605	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g23230
SBS	Chr8	1460882	C-T	HET	INTERGENIC
SBS	Chr8	17606950	A-T	HET	INTERGENIC
SBS	Chr8	17774715	A-C	HET	INTRON
SBS	Chr8	2507002	T-A	HET	INTERGENIC
SBS	Chr9	13089656	G-C	HET	STOP_GAINED	LOC_Os09g21620

Deletions: 26

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	2099284	2099298	14	LOC_Os08g04290
Deletion	Chr2	2140045	2140052	7
Deletion	Chr12	3058600	3058603	3
Deletion	Chr6	3328256	3328257	1
Deletion	Chr3	4421687	4421688	1
Deletion	Chr9	6354306	6354323	17
Deletion	Chr12	8402791	8402800	9
Deletion	Chr9	10940797	10940798	1
Deletion	Chr11	11380991	11380995	4
Deletion	Chr1	11851713	11851723	10
Deletion	Chr10	13108528	13108538	10
Deletion	Chr11	14073482	14073613	131	LOC_Os11g24680
Deletion	Chr12	15177444	15177467	23
Deletion	Chr7	16294132	16294137	5
Deletion	Chr11	18719074	18719082	8	LOC_Os11g31850
Deletion	Chr5	21463352	21463353	1	LOC_Os05g36190
Deletion	Chr6	21609034	21609035	1
Deletion	Chr4	23823145	23823150	5
Deletion	Chr6	24479081	24479095	14
Deletion	Chr7	26508513	26508529	16	LOC_Os07g44360
Deletion	Chr8	27328970	27328982	12
Deletion	Chr4	27662308	27662312	4	LOC_Os04g46660
Deletion	Chr4	28026682	28026686	4	LOC_Os04g47190
Deletion	Chr1	34999437	34999447	10
Deletion	Chr1	40533381	40533382	1
Deletion	Chr1	42527158	42527164	6	LOC_Os01g73370

Insertions: 7

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	30565964	30565965	2
Insertion	Chr1	32684865	32684866	2
Insertion	Chr1	40542753	40542756	4
Insertion	Chr11	28875095	28875096	2
Insertion	Chr2	18910158	18910175	18
Insertion	Chr3	12367866	12367868	3
Insertion	Chr7	548233	548234	2

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	2756321	2756683
Inversion	Chr4	4168998	4169160
Inversion	Chr4	10843284	10843575
Inversion	Chr10	14011235	14011421	LOC_Os10g26780
Inversion	Chr4	21055885	21056053

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr4	4219528	Chr1	33474600	LOC_Os01g57890
Translocation	Chr11	6352914	Chr3	3398122
Translocation	Chr11	6353075	Chr3	3397984

Main menu