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Mutant Information

Mutant Name	FN403-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN403-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 26

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13309097	T-A	HOMO	INTERGENIC
SBS	Chr1	24925229	G-A	HET	INTERGENIC
SBS	Chr1	34546393	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g59710
SBS	Chr2	10139094	G-A	HET	INTRON
SBS	Chr2	22430239	A-G	HET	INTERGENIC
SBS	Chr3	11279744	C-T	HET	INTERGENIC
SBS	Chr3	13904135	T-C	HET	INTERGENIC
SBS	Chr3	27206127	G-A	HOMO	INTERGENIC
SBS	Chr3	35149387	A-G	HOMO	UTR_5_PRIME
SBS	Chr4	6916273	T-C	HET	INTERGENIC
SBS	Chr4	10046589	T-C	HET	INTERGENIC
SBS	Chr4	19645173	G-A	HET	INTERGENIC
SBS	Chr5	7663366	G-A	HET	INTERGENIC
SBS	Chr5	10202028	C-T	HET	INTERGENIC
SBS	Chr5	11310034	A-G	HET	INTERGENIC
SBS	Chr5	28101132	G-C	HET	SYNONYMOUS_CODING
SBS	Chr8	296419	G-A	HET	INTERGENIC
SBS	Chr8	4340161	C-T	HET	INTERGENIC
SBS	Chr9	19952310	T-A	HET	INTRON
SBS	Chr9	21925554	C-T	HET	INTRON
SBS	Chr10	19349413	T-C	HET	INTERGENIC
SBS	Chr11	7522345	G-T	HET	INTRON
SBS	Chr11	14248380	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os11g25020
SBS	Chr11	16901936	C-T	HOMO	INTERGENIC
SBS	Chr11	19257205	A-T	HET	INTERGENIC
SBS	Chr12	12989185	C-T	HET	INTRON

Deletions: 18

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	2271791	2271796	5
Deletion	Chr7	2436181	2436184	3
Deletion	Chr5	3241037	3241054	17
Deletion	Chr7	7173657	7173693	36
Deletion	Chr1	8959333	8959341	8	LOC_Os01g15910
Deletion	Chr5	10284980	10284992	12
Deletion	Chr11	11651366	11651376	10	LOC_Os11g20160
Deletion	Chr11	13564307	13564313	6	LOC_Os11g23940
Deletion	Chr11	14811894	14811897	3
Deletion	Chr3	15716848	15716853	5
Deletion	Chr9	17632472	17632490	18	LOC_Os09g29010
Deletion	Chr5	17674998	17674999	1
Deletion	Chr6	19476518	19476519	1
Deletion	Chr10	19583236	19583243	7
Deletion	Chr2	23580625	23580655	30	LOC_Os02g39050
Deletion	Chr4	30568471	30568478	7
Deletion	Chr4	34758361	34758364	3
Deletion	Chr3	35154593	35154598	5

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	15558927	15558927	1
Insertion	Chr2	29365387	29365389	3	LOC_Os02g47980
Insertion	Chr3	8900103	8900103	1
Insertion	Chr3	35280975	35280975	1

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	7201570	7491748	LOC_Os01g12950

No Translocation

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