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Mutant Information

Mutant Name	FN829-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN829-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: 25

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	17315952	A-G	HET	INTRON
SBS	Chr1	35677891	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g61660
SBS	Chr1	36396299	C-T	HET	INTRON
SBS	Chr2	7537258	A-C	HET	INTERGENIC
SBS	Chr2	13078590	C-T	HOMO	INTERGENIC
SBS	Chr3	4678172	A-G	HOMO	INTERGENIC
SBS	Chr3	4996160	C-A	HET	INTERGENIC
SBS	Chr3	21971107	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g39570
SBS	Chr3	21971108	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g39570
SBS	Chr3	23797985	A-T	HET	INTRON
SBS	Chr4	2361885	C-A	HET	SYNONYMOUS_CODING
SBS	Chr4	6153902	G-C	HET	INTERGENIC
SBS	Chr4	8371328	C-T	HET	INTERGENIC
SBS	Chr5	22898705	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g39040
SBS	Chr6	29862591	C-T	HET	INTERGENIC
SBS	Chr7	12405525	A-T	HOMO	INTERGENIC
SBS	Chr7	23742040	A-T	HET	INTERGENIC
SBS	Chr8	25473788	T-C	HET	INTERGENIC
SBS	Chr8	25718786	A-T	HET	INTERGENIC
SBS	Chr8	26098392	T-A	HET	INTERGENIC
SBS	Chr9	18875649	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g31390
SBS	Chr10	22805012	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g42364
SBS	Chr11	4244738	C-T	HET	INTERGENIC
SBS	Chr11	20413851	G-T	HET	INTRON
SBS	Chr12	25034866	C-G	HOMO	INTERGENIC

Deletions: 15

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr2	2215946	2215947	1
Deletion	Chr10	4542399	4542419	20
Deletion	Chr10	7448939	7448940	1
Deletion	Chr1	8127267	8127268	1	LOC_Os01g14510
Deletion	Chr8	9074518	9074525	7
Deletion	Chr8	12090378	12090386	8	LOC_Os08g20170
Deletion	Chr11	12649052	12649053	1
Deletion	Chr8	13048176	13048177	1	LOC_Os08g21800
Deletion	Chr11	15315918	15315923	5
Deletion	Chr8	18534940	18534943	3
Deletion	Chr11	19197001	19292000	95000	14
Deletion	Chr11	23062687	23062688	1
Deletion	Chr11	23710001	23807000	97000	16
Deletion	Chr3	30755479	30755488	9
Deletion	Chr3	33177300	33177306	6

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr5	6546094	6546094	1
Insertion	Chr11	26129615	26129616	2
Insertion	Chr1	22731681	22731681	1
Insertion	Chr5	979004	979004	1

Inversions: 8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	2990366	3024958
Inversion	Chr8	17188900	18100772	LOC_Os08g29520
Inversion	Chr8	17188929	20751098
Inversion	Chr8	17189419	20751098
Inversion	Chr8	17189433	18100782	LOC_Os08g29520
Inversion	Chr11	19291871	21691230
Inversion	Chr11	19292071	21691225
Inversion	Chr3	20566862	20634239	LOC_Os03g37110

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	13396680	Chr3	5009447

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