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Mutant Information

Mutant Name	FN-99 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-99 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Normal (Between 75% and 125%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) 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	11949557	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr1	14816308	T-C	HOMO	INTRON
SBS	Chr1	18809085	G-A	HOMO	STOP_GAINED	LOC_Os01g34140
SBS	Chr10	17579370	G-A	HET	INTERGENIC
SBS	Chr12	1317022	A-T	HOMO	INTRON
SBS	Chr12	25348556	C-T	HET	INTERGENIC
SBS	Chr2	2044212	C-A	HOMO	INTERGENIC
SBS	Chr2	22560760	T-C	HOMO	INTERGENIC
SBS	Chr3	14174223	C-T	HET	INTERGENIC
SBS	Chr3	17775673	G-A	HET	INTRON
SBS	Chr3	2133416	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os03g04570
SBS	Chr3	35508564	G-A	HET	INTERGENIC
SBS	Chr4	13564858	G-A	HOMO	INTERGENIC
SBS	Chr4	14480879	T-C	HOMO	INTERGENIC
SBS	Chr4	3053521	C-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g05900
SBS	Chr4	4707805	C-T	HOMO	INTERGENIC
SBS	Chr4	4707811	C-G	HOMO	INTERGENIC
SBS	Chr4	599871	C-T	HET	INTERGENIC
SBS	Chr4	599874	T-A	HET	INTERGENIC
SBS	Chr5	6702821	C-A	HET	UTR_5_PRIME
SBS	Chr5	818597	A-T	HET	INTERGENIC
SBS	Chr6	25334967	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os06g42200
SBS	Chr7	29661266	A-C	HET	INTRON
SBS	Chr8	14247548	C-T	HOMO	INTERGENIC
SBS	Chr8	2384083	T-G	HOMO	INTRON
SBS	Chr9	12879580	C-T	HET	INTERGENIC

Deletions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	656087	656094	7
Deletion	Chr6	2455033	2455049	16
Deletion	Chr11	2714216	2714229	13	LOC_Os11g05840
Deletion	Chr4	2962421	2962430	9
Deletion	Chr2	5696197	5699710	3513	LOC_Os02g10770
Deletion	Chr4	10681475	10681476	1
Deletion	Chr12	11816573	11821639	5066
Deletion	Chr3	13909439	13909445	6
Deletion	Chr5	15140617	15140623	6	LOC_Os05g26040
Deletion	Chr5	16723606	16723607	1	LOC_Os05g28540
Deletion	Chr4	24125889	24125899	10	LOC_Os04g40640
Deletion	Chr7	27508960	27508961	1

Insertions: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	6704332	6704335	4

No Inversion

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	2428461	Chr8	15123304	LOC_Os08g24946
Translocation	Chr11	9320583	Chr2	5696198	LOC_Os02g10770
Translocation	Chr11	9320589	Chr2	5699695

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