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Mutant Information

Mutant Name	FN369-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN369-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: 31

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	7083788	A-G	HET	SYNONYMOUS_CODING
SBS	Chr10	3206423	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os10g06250
SBS	Chr11	10526323	G-A	HET	INTERGENIC
SBS	Chr11	12796622	G-C	HET	INTERGENIC
SBS	Chr11	9415292	A-T	HET	INTERGENIC
SBS	Chr12	10034894	G-T	HET	INTERGENIC
SBS	Chr12	16566157	T-A	HET	INTERGENIC
SBS	Chr12	18431894	C-T	HOMO	INTRON
SBS	Chr12	18804700	A-T	HOMO	INTRON
SBS	Chr12	24242495	C-T	HOMO	INTERGENIC
SBS	Chr12	26402118	A-T	HET	INTERGENIC
SBS	Chr2	13485243	T-A	HET	INTERGENIC
SBS	Chr2	19811708	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os02g33340
SBS	Chr2	27936918	G-A	HET	INTERGENIC
SBS	Chr2	27936924	G-A	HET	INTERGENIC
SBS	Chr2	7189071	C-G	HET	INTERGENIC
SBS	Chr3	21399439	G-A	HET	SYNONYMOUS_CODING
SBS	Chr3	27362661	G-A	HOMO	INTERGENIC
SBS	Chr3	30194412	A-C	HOMO	INTERGENIC
SBS	Chr3	9863238	T-C	HET	INTERGENIC
SBS	Chr4	9898730	A-G	HET	INTRON
SBS	Chr5	10520036	G-T	HET	INTERGENIC
SBS	Chr5	14200338	T-G	HET	INTRON
SBS	Chr5	3830368	A-G	HET	INTERGENIC
SBS	Chr6	15066808	A-G	HOMO	INTRON
SBS	Chr7	1065828	A-G	HOMO	INTERGENIC
SBS	Chr7	16749123	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g28614
SBS	Chr7	16946291	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g28900
SBS	Chr8	23987722	G-A	HET	INTERGENIC
SBS	Chr9	12081052	T-C	HET	INTRON
SBS	Chr9	9120978	G-A	HET	INTRON

Deletions: 23

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	1325723	1325733	10
Deletion	Chr4	2050001	2265000	215000	33
Deletion	Chr2	2309783	2309784	1
Deletion	Chr12	6926405	6926417	12
Deletion	Chr12	9780001	9999000	219000	37
Deletion	Chr7	9849918	9849923	5	LOC_Os07g16780
Deletion	Chr6	10776806	10776815	9
Deletion	Chr2	11218389	11218390	1
Deletion	Chr10	13946149	13946167	18
Deletion	Chr9	14705826	14705828	2
Deletion	Chr5	15257521	15257538	17
Deletion	Chr11	16137483	16137489	6	LOC_Os11g28070
Deletion	Chr12	18804177	18804194	17
Deletion	Chr10	18950549	18950550	1
Deletion	Chr8	23931351	23931358	7
Deletion	Chr3	24411460	24411470	10
Deletion	Chr6	26575902	26575910	8
Deletion	Chr11	26929026	26929027	1	LOC_Os11g44530
Deletion	Chr5	27405988	27405998	10
Deletion	Chr5	27798790	27798791	1
Deletion	Chr5	28370325	28370337	12
Deletion	Chr6	30066308	30066313	5	LOC_Os06g49690
Deletion	Chr1	35633897	35663588	29691	4

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	21109752	21109752	1
Insertion	Chr1	27782763	27782764	2
Insertion	Chr3	3312217	3312217	1

Inversions: 6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	653372	2050060
Inversion	Chr2	2223974	2777995	2
Inversion	Chr2	2223988	2778000	2
Inversion	Chr12	5143181	6229526	LOC_Os12g09739
Inversion	Chr12	9779744	10277549	LOC_Os12g17080
Inversion	Chr12	9999384	10277549

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	5143224	Chr11	1270190	2

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