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Mutant Information

Mutant Name	FN1646-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1646-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: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: 26

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12257844	G-A	HET	INTERGENIC
SBS	Chr1	29097901	A-G	Homo	INTERGENIC
SBS	Chr2	14667059	C-T	HET	INTRON
SBS	Chr2	17877305	T-G	HET	INTERGENIC
SBS	Chr3	14053017	C-T	HET	INTERGENIC
SBS	Chr3	14199040	G-A	HET	INTERGENIC
SBS	Chr4	3002231	G-C	HET	INTRON
SBS	Chr4	10751234	C-T	HET	INTERGENIC
SBS	Chr4	11128616	G-C	HET	INTERGENIC
SBS	Chr4	14467616	G-T	HET	INTERGENIC
SBS	Chr4	32918719	T-A	HET	INTRON
SBS	Chr5	20495472	C-A	Homo	INTERGENIC
SBS	Chr5	26010938	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g44740
SBS	Chr7	10472637	A-G	HET	INTERGENIC
SBS	Chr7	22087409	C-A	HET	INTERGENIC
SBS	Chr8	2830510	G-A	Homo	INTERGENIC
SBS	Chr8	2830511	T-A	Homo	INTERGENIC
SBS	Chr9	2061682	G-A	HET	INTERGENIC
SBS	Chr9	2941905	C-G	HET	INTERGENIC
SBS	Chr9	3771714	G-A	HET	INTERGENIC
SBS	Chr9	20519470	C-T	HET	SPLICE_SITE_REGION
SBS	Chr9	22635926	C-T	HET	START_GAINED	LOC_Os09g39360
SBS	Chr10	20074557	A-T	Homo	INTERGENIC
SBS	Chr11	18913826	A-T	HET	INTERGENIC
SBS	Chr11	24841923	C-G	HET	INTRON
SBS	Chr12	8752602	G-A	HET	SYNONYMOUS_CODING

Deletions: 38

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	1943491	1943492	1
Deletion	Chr3	2595408	2595427	19
Deletion	Chr9	4559945	4559948	3
Deletion	Chr12	4560232	4560245	13
Deletion	Chr9	5166966	5167019	53
Deletion	Chr12	5525432	5525442	10	LOC_Os12g10430
Deletion	Chr7	8064178	8064182	4	LOC_Os07g14130
Deletion	Chr2	9534895	9534917	22
Deletion	Chr12	10958531	10958532	1
Deletion	Chr3	11157832	11157846	14
Deletion	Chr11	11283781	11283782	1
Deletion	Chr5	11621156	11621158	2
Deletion	Chr4	11760723	11760726	3
Deletion	Chr8	11839660	11839676	16
Deletion	Chr2	12266196	12266204	8
Deletion	Chr4	12527012	12527020	8
Deletion	Chr5	12558658	12558678	20
Deletion	Chr11	13137881	13137893	12
Deletion	Chr7	15381541	15381542	1
Deletion	Chr7	15643340	15643353	13
Deletion	Chr2	16731412	16731413	1
Deletion	Chr3	16747972	16747980	8
Deletion	Chr4	17092637	17092641	4
Deletion	Chr7	17219209	17220876	1667
Deletion	Chr4	17582026	17582027	1
Deletion	Chr9	18543215	18543226	11
Deletion	Chr5	20495462	20495465	3
Deletion	Chr4	20618522	20618529	7
Deletion	Chr8	21813709	21813710	1
Deletion	Chr5	21899887	21899889	2
Deletion	Chr9	22711497	22711498	1
Deletion	Chr12	23632025	23632027	2
Deletion	Chr3	25859666	25859667	1	LOC_Os03g45779
Deletion	Chr1	26704539	26704540	1
Deletion	Chr1	34513856	34513868	12
Deletion	Chr1	38075994	38075998	4
Deletion	Chr1	38904274	38904276	2
Deletion	Chr1	42289269	42289271	2

Insertions: 12

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr8	10641546	10641551	6
Insertion	Chr1	7232182	7232185	4
Insertion	Chr1	40423363	40423388	26
Insertion	Chr3	12038207	12038277	71
Insertion	Chr4	2323057	2323059	3
Insertion	Chr6	23346755	23346757	3
Insertion	Chr7	12243299	12243299	1
Insertion	Chr7	21699882	21699897	16
Insertion	Chr8	5137098	5137098	1
Insertion	Chr8	6003459	6003460	2
Insertion	Chr10	11405611	11405614	4
Insertion	Chr11	15836071	15836090	20

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	1542159	3339422	2
Inversion	Chr12	1542173	3339411	2
Inversion	Chr12	14631624	14853206
Inversion	Chr7	15575748	16361517	LOC_Os07g28050
Inversion	Chr7	15579235	16361516	LOC_Os07g28050

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	4078638	Chr3	28990577	LOC_Os03g50780
Translocation	Chr9	4079465	Chr3	28990533	LOC_Os03g50780
Translocation	Chr12	9725470	Chr9	13612940
Translocation	Chr6	15747401	Chr4	19596843

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr7	15579233	17220862	1641629

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