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Mutant Information

Mutant Name	FN1409-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1409-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 43

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	905152	G-T	HET	SYNONYMOUS_CODING
SBS	Chr1	9757240	C-A	HET	INTERGENIC
SBS	Chr1	15977607	C-T	HET	SYNONYMOUS_CODING
SBS	Chr1	41497065	T-C	HET	INTRON
SBS	Chr2	26914955	G-A	HET	INTERGENIC
SBS	Chr3	3641551	T-A	HET	INTRON
SBS	Chr3	3647572	G-A	HET	INTRON
SBS	Chr3	18877536	C-T	HET	INTERGENIC
SBS	Chr3	31852736	C-T	HET	INTERGENIC
SBS	Chr4	21031129	C-T	HOMO	INTERGENIC
SBS	Chr4	34605693	T-G	HET	UTR_3_PRIME
SBS	Chr5	3799747	T-A	HET	INTRON
SBS	Chr5	10266186	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g17840
SBS	Chr6	4370370	T-A	HET	STOP_LOST	LOC_Os06g08730
SBS	Chr6	9673495	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g16750
SBS	Chr6	11084304	G-A	HOMO	INTERGENIC
SBS	Chr6	14107534	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr6	16026663	C-T	HET	INTRON
SBS	Chr6	20206618	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr6	24744246	G-A	HOMO	INTERGENIC
SBS	Chr7	2442184	G-A	HET	INTERGENIC
SBS	Chr7	9121314	G-A	HET	INTERGENIC
SBS	Chr7	10907825	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g18440
SBS	Chr7	17765574	A-G	HET	INTERGENIC
SBS	Chr7	18350620	A-C	HET	SPLICE_SITE_DONOR	LOC_Os07g30980
SBS	Chr7	19968182	G-A	HET	INTERGENIC
SBS	Chr7	19968188	G-A	HET	INTERGENIC
SBS	Chr7	28088758	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g47010
SBS	Chr8	14974549	G-A	HOMO	INTERGENIC
SBS	Chr8	21207571	C-T	HET	INTERGENIC
SBS	Chr9	10076755	G-A	HET	INTRON
SBS	Chr9	12859474	G-A	HET	SYNONYMOUS_CODING
SBS	Chr9	16450303	A-G	HET	INTERGENIC
SBS	Chr10	4452848	A-G	HET	INTERGENIC
SBS	Chr10	5256035	C-T	HET	INTERGENIC
SBS	Chr10	5256037	A-G	HET	INTERGENIC
SBS	Chr10	21302523	G-A	HET	INTRON
SBS	Chr11	13585855	A-T	HET	SYNONYMOUS_CODING
SBS	Chr11	19518550	C-T	HET	INTRON
SBS	Chr12	3864335	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr12	5011582	G-A	HET	INTERGENIC
SBS	Chr12	18047461	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os12g30120
SBS	Chr12	22272343	T-G	HOMO	STOP_GAINED	LOC_Os12g36380

Deletions: 18

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	1137413	1137426	13
Deletion	Chr8	1456066	1456070	4	LOC_Os08g03160
Deletion	Chr5	2121001	2180000	59000	7
Deletion	Chr12	3384776	3384777	1	LOC_Os12g06930
Deletion	Chr3	3519662	3519663	1
Deletion	Chr1	4589508	4589520	12
Deletion	Chr10	5367003	5367004	1
Deletion	Chr8	7542914	7542922	8
Deletion	Chr5	9100841	9100856	15
Deletion	Chr6	9690072	9690073	1
Deletion	Chr1	13998737	13998738	1
Deletion	Chr6	20720010	20720011	1
Deletion	Chr3	21030836	21030844	8	LOC_Os03g37864
Deletion	Chr6	25746620	25746622	2
Deletion	Chr2	26107585	26107596	11
Deletion	Chr2	33006938	33006940	2
Deletion	Chr2	33545880	33545881	1
Deletion	Chr1	39605451	39605462	11	LOC_Os01g68120

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr8	27723449	27723450	2
Insertion	Chr1	532506	532506	1
Insertion	Chr3	5500885	5500893	9
Insertion	Chr10	14354957	14354957	1

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	2120999	2242580
Inversion	Chr5	2180190	2242584	LOC_Os05g04640
Inversion	Chr8	10012863	10584095	LOC_Os08g16380

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	16269066	Chr4	4978107	LOC_Os04g09360

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