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Mutant Information

Mutant Name	FN684-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN684-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: 34

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	27753968	G-A	HET	INTERGENIC
SBS	Chr1	31995305	T-G	HOMO	INTRON
SBS	Chr1	4372484	A-G	HOMO	INTERGENIC
SBS	Chr1	6858106	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g12490
SBS	Chr1	6858107	T-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g12490
SBS	Chr10	17280677	T-A	HET	SYNONYMOUS_CODING
SBS	Chr10	19390956	A-T	HET	INTRON
SBS	Chr10	9145501	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g18042
SBS	Chr11	23739833	C-T	HET	INTERGENIC
SBS	Chr11	8567408	G-T	HET	INTERGENIC
SBS	Chr12	4221108	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os12g08290
SBS	Chr2	13178508	A-T	HOMO	INTERGENIC
SBS	Chr2	16481609	G-A	HOMO	INTRON
SBS	Chr3	19236403	C-T	HET	INTERGENIC
SBS	Chr4	31709402	C-T	HET	INTERGENIC
SBS	Chr5	11015989	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g18980
SBS	Chr5	14365635	G-A	HET	INTERGENIC
SBS	Chr5	16090513	T-C	HET	INTERGENIC
SBS	Chr5	17519333	C-A	HET	INTERGENIC
SBS	Chr5	9396070	G-T	HET	INTRON
SBS	Chr6	5893640	T-C	HET	INTRON
SBS	Chr7	10114786	G-A	HOMO	INTERGENIC
SBS	Chr7	10114787	G-C	HOMO	INTERGENIC
SBS	Chr7	10214767	T-A	HOMO	INTERGENIC
SBS	Chr7	22132763	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g36970
SBS	Chr7	23770635	A-T	HET	INTERGENIC
SBS	Chr7	25709391	C-T	HET	INTERGENIC
SBS	Chr8	24618450	C-A	HOMO	INTERGENIC
SBS	Chr8	806254	G-A	HET	INTERGENIC
SBS	Chr9	12265310	G-C	HET	INTRON
SBS	Chr9	1471375	G-T	HET	INTERGENIC
SBS	Chr9	2241264	G-T	HET	INTRON
SBS	Chr9	2379634	G-T	HET	INTERGENIC
SBS	Chr9	2379635	C-T	HET	INTERGENIC

Deletions: 31

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	192297	192300	3
Deletion	Chr1	290262	290263	1
Deletion	Chr1	1782530	1782566	36
Deletion	Chr5	2983810	2983812	2
Deletion	Chr8	3249090	3249091	1
Deletion	Chr12	3493385	3493386	1
Deletion	Chr10	4747623	4747624	1
Deletion	Chr10	4747842	4747844	2
Deletion	Chr5	6515521	6515525	4	LOC_Os05g11510
Deletion	Chr8	8827001	8913000	86000	13
Deletion	Chr8	9733423	9733424	1
Deletion	Chr4	10967440	10967444	4	LOC_Os04g19660
Deletion	Chr5	12103672	12103673	1
Deletion	Chr5	12283001	12417000	134000	21
Deletion	Chr4	14560348	14560367	19
Deletion	Chr4	14882615	14882776	161
Deletion	Chr9	15328554	15328557	3
Deletion	Chr3	15498183	15498196	13
Deletion	Chr10	15524602	15524611	9	LOC_Os10g29880
Deletion	Chr3	15921528	15921529	1
Deletion	Chr12	17167341	17167342	1
Deletion	Chr1	17673962	17675372	1410
Deletion	Chr4	18982386	18982387	1
Deletion	Chr9	20089001	20108000	19000	4
Deletion	Chr2	20713530	20713548	18	LOC_Os02g34550
Deletion	Chr12	21129620	21129621	1
Deletion	Chr1	26042230	26042235	5
Deletion	Chr4	27611250	27611268	18
Deletion	Chr3	30557064	30557067	3
Deletion	Chr1	31837854	31837866	12
Deletion	Chr2	34048888	34048895	7

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	5674041	5674041	1
Insertion	Chr10	8242098	8242103	6
Insertion	Chr11	27585620	27585621	2
Insertion	Chr3	2735216	2735220	5
Insertion	Chr6	8704199	8704200	2

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	12280851	12304550

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	2998740	Chr1	37755113
Translocation	Chr8	19985564	Chr1	17675367	LOC_Os08g32260

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