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Mutant Information

Mutant Name	FN408-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN408-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) 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: 24

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1857998	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g04210
SBS	Chr1	2015679	C-T	HET	SPLICE_SITE_REGION
SBS	Chr10	12001228	T-A	HOMO	INTERGENIC
SBS	Chr10	8353395	C-G	HET	INTERGENIC
SBS	Chr11	14504658	T-G	HET	INTERGENIC
SBS	Chr11	19449643	A-T	HET	INTRON
SBS	Chr12	13896077	T-C	HOMO	INTRON
SBS	Chr12	25417515	G-C	HOMO	INTRON
SBS	Chr12	8063608	G-A	HET	INTERGENIC
SBS	Chr2	30178052	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g49390
SBS	Chr3	33577503	A-T	HET	INTERGENIC
SBS	Chr3	9065515	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g16430
SBS	Chr3	9065516	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g16430
SBS	Chr4	11454957	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g20474
SBS	Chr4	19045427	T-A	HOMO	INTRON
SBS	Chr5	15257196	T-A	HET	INTRON
SBS	Chr6	29767541	A-G	HET	INTERGENIC
SBS	Chr6	29771109	A-G	HET	INTRON
SBS	Chr6	29771111	A-T	HET	INTRON
SBS	Chr6	3446290	T-C	HET	INTRON
SBS	Chr7	29410749	G-A	HET	INTERGENIC
SBS	Chr8	19895117	G-T	HOMO	INTERGENIC
SBS	Chr8	19895118	T-G	HOMO	INTERGENIC
SBS	Chr9	15492763	T-C	HOMO	INTERGENIC

Deletions: 14

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	116856	116857	1
Deletion	Chr11	129608	129612	4
Deletion	Chr1	1081427	1081431	4	LOC_Os01g02930
Deletion	Chr7	2506477	2506485	8	LOC_Os07g05440
Deletion	Chr12	4835806	4835807	1
Deletion	Chr5	5778905	5778907	2
Deletion	Chr6	10138541	10138817	276	LOC_Os06g17480
Deletion	Chr2	14102905	14102907	2
Deletion	Chr4	14651648	14651655	7
Deletion	Chr6	14858446	14858449	3	LOC_Os06g25360
Deletion	Chr7	18612145	18612186	41	LOC_Os07g31420
Deletion	Chr4	27534991	27534992	1
Deletion	Chr6	29041017	29041046	29
Deletion	Chr1	33780725	33780728	3

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr6	27927343	27927344	2
Insertion	Chr8	14740268	14740273	6

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	1547555	1686487	LOC_Os05g03620
Inversion	Chr7	13586649	14559744
Inversion	Chr1	37519371	37723138	LOC_Os01g64990

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr6	10138548	Chr4	34955248	LOC_Os06g17480
Translocation	Chr6	25082021	Chr4	34955311
Translocation	Chr6	25082033	Chr4	34955268

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