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Mutant Information

Mutant Name	FN840-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN840-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: 28

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12308579	T-C	HET	INTRON
SBS	Chr1	28781343	C-T	HET	INTERGENIC
SBS	Chr10	12764016	C-A	HET	INTERGENIC
SBS	Chr10	14393026	C-T	HET	INTERGENIC
SBS	Chr10	14393027	C-T	HET	INTERGENIC
SBS	Chr10	14394590	A-C	HET	INTERGENIC
SBS	Chr11	1024006	G-A	HET	INTRON
SBS	Chr11	1805505	T-C	HET	INTERGENIC
SBS	Chr11	4633917	A-T	HET	INTERGENIC
SBS	Chr11	4633918	G-T	HET	INTERGENIC
SBS	Chr11	5369463	G-T	HET	INTERGENIC
SBS	Chr11	8660121	G-T	HET	INTERGENIC
SBS	Chr12	8166978	T-A	HET	INTERGENIC
SBS	Chr2	30287987	C-T	HET	INTERGENIC
SBS	Chr2	5647118	G-T	HET	INTERGENIC
SBS	Chr3	19421658	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g34070
SBS	Chr3	21561225	C-T	HOMO	INTERGENIC
SBS	Chr3	36288790	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os03g64219
SBS	Chr4	12940673	T-A	HET	INTRON
SBS	Chr4	24312835	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g40970
SBS	Chr5	21636675	C-T	HET	INTERGENIC
SBS	Chr5	24889549	C-T	HET	INTERGENIC
SBS	Chr5	28295563	C-G	HET	INTERGENIC
SBS	Chr7	25927431	A-G	HET	INTRON
SBS	Chr7	28901329	C-T	HET	INTERGENIC
SBS	Chr7	5710169	A-T	HET	INTRON
SBS	Chr7	5710170	G-A	HET	INTRON
SBS	Chr9	6708753	T-G	HET	INTERGENIC

Deletions: 21

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	177189	177190	1	LOC_Os12g01310
Deletion	Chr3	310334	310336	2	LOC_Os03g01450
Deletion	Chr10	569001	597000	28000	7
Deletion	Chr11	1696348	1696349	1
Deletion	Chr1	2857747	2857748	1	LOC_Os01g05970
Deletion	Chr2	3338240	3338244	4
Deletion	Chr8	4345902	4345905	3
Deletion	Chr2	8145291	8145317	26
Deletion	Chr6	8167997	8168023	26
Deletion	Chr8	8610870	8610883	13
Deletion	Chr2	9829929	9829930	1
Deletion	Chr4	12662001	12829000	167000	25
Deletion	Chr12	17275637	17275644	7
Deletion	Chr4	17649759	17649765	6
Deletion	Chr3	24373627	24373632	5	LOC_Os03g43610
Deletion	Chr3	29182836	29182837	1	LOC_Os03g51040
Deletion	Chr1	29761224	29761234	10	LOC_Os01g51754
Deletion	Chr1	39009099	39009107	8
Deletion	Chr1	41294938	41294941	3
Deletion	Chr1	42551001	42650000	99000	18
Deletion	Chr1	42716350	42716368	18

Insertions: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr12	23461991	23461992	2

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	543073	560719	LOC_Os10g01860
Inversion	Chr10	597166	1300598	LOC_Os10g01940
Inversion	Chr4	11899063	12829243
Inversion	Chr3	30598879	30784386	LOC_Os03g53310

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	930903	Chr10	16656694	LOC_Os10g31770
Translocation	Chr3	21498214	Chr1	2021375	LOC_Os03g38730
Translocation	Chr6	22527119	Chr1	42550858	2
Translocation	Chr6	22528027	Chr1	42649833	2

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