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Mutant Information

Mutant Name	FN1285-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1285-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) = Low (Between 25% and 74%) 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: 33

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3860974	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g07980
SBS	Chr1	4834090	A-T	HET	INTERGENIC
SBS	Chr1	12586442	T-A	HOMO	INTRON
SBS	Chr1	35866051	C-T	HOMO	INTERGENIC
SBS	Chr3	16854484	G-A	HET	INTERGENIC
SBS	Chr3	36311133	C-T	HET	INTERGENIC
SBS	Chr4	12905308	A-G	HOMO	SYNONYMOUS_CODING
SBS	Chr4	27147944	A-G	HET	INTERGENIC
SBS	Chr5	12345068	T-C	HET	INTERGENIC
SBS	Chr5	14460975	C-A	HET	INTRON
SBS	Chr5	20278696	C-T	HET	STOP_GAINED	LOC_Os05g34260
SBS	Chr5	20278697	C-T	HET	STOP_GAINED	LOC_Os05g34260
SBS	Chr5	20366210	C-T	HET	INTERGENIC
SBS	Chr6	9842724	T-A	HET	SYNONYMOUS_CODING
SBS	Chr6	10067600	G-A	HET	STOP_GAINED	LOC_Os06g17370
SBS	Chr6	14860784	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g25370
SBS	Chr6	22372655	C-T	HET	INTERGENIC
SBS	Chr7	7175061	G-T	HET	INTERGENIC
SBS	Chr7	9206890	A-G	HET	INTRON
SBS	Chr7	15345061	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g26610
SBS	Chr7	16745836	T-C	HET	INTERGENIC
SBS	Chr8	11586558	C-A	HOMO	INTRON
SBS	Chr8	11642093	G-T	HOMO	INTRON
SBS	Chr8	25102253	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g39640
SBS	Chr9	3252028	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g06800
SBS	Chr10	18414388	A-G	HOMO	INTERGENIC
SBS	Chr11	5708148	T-C	HOMO	INTERGENIC
SBS	Chr11	15070632	G-A	HET	INTERGENIC
SBS	Chr11	19234518	C-T	HOMO	INTERGENIC
SBS	Chr11	25329773	G-A	HET	INTERGENIC
SBS	Chr12	8716649	G-A	HET	INTERGENIC
SBS	Chr12	16703003	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g28260
SBS	Chr12	17850606	C-G	HOMO	INTRON

Deletions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	3436616	3436620	4
Deletion	Chr8	3544142	3544143	1
Deletion	Chr1	4018817	4018827	10
Deletion	Chr4	5329670	5329671	1
Deletion	Chr4	7107715	7107716	1
Deletion	Chr3	7707650	7707655	5	LOC_Os03g14210
Deletion	Chr2	7786063	7786072	9
Deletion	Chr6	9606170	9606174	4
Deletion	Chr1	9842039	9842050	11	LOC_Os01g17120
Deletion	Chr5	10249875	10249882	7	LOC_Os05g17820
Deletion	Chr5	11656218	11656224	6	LOC_Os05g19954
Deletion	Chr4	12048800	12048806	6
Deletion	Chr3	12388765	12388770	5
Deletion	Chr3	17419205	17419209	4
Deletion	Chr2	19868073	19868084	11
Deletion	Chr3	21071193	21071206	13
Deletion	Chr11	21676167	21676172	5
Deletion	Chr6	21962018	21962019	1
Deletion	Chr6	22070001	22086000	16000	2
Deletion	Chr6	22328001	22369000	41000	12
Deletion	Chr3	31479009	31479015	6
Deletion	Chr4	35039990	35040005	15	LOC_Os04g58910

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr6	30832239	30832240	2
Insertion	Chr9	8981681	8981682	2
Insertion	Chr1	25474794	25474794	1
Insertion	Chr4	20467639	20467639	1
Insertion	Chr9	4547946	4547946	1

Inversions: 9

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	714805	715144	LOC_Os05g02240
Inversion	Chr6	16020883	16281530	LOC_Os06g28194
Inversion	Chr6	16020899	16281735	LOC_Os06g28194
Inversion	Chr3	21061133	21268643	2
Inversion	Chr3	21297665	21646474
Inversion	Chr6	21669806	22263451
Inversion	Chr6	22022118	22378305	2
Inversion	Chr6	22070311	22372858	LOC_Os06g37340
Inversion	Chr6	22263377	22327919	LOC_Os06g37680

Translocations: 9

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	2659188	Chr3	26696327	LOC_Os08g05140
Translocation	Chr3	4463928	Chr2	2674028
Translocation	Chr11	7272760	Chr7	17129582	LOC_Os07g29224
Translocation	Chr11	11660361	Chr10	5044332
Translocation	Chr12	13389110	Chr7	19610118
Translocation	Chr6	19916319	Chr3	25571191	LOC_Os03g45290
Translocation	Chr6	22070264	Chr3	21297645	LOC_Os06g37340
Translocation	Chr6	22372803	Chr3	21297397
Translocation	Chr4	27746232	Chr3	16831606

Tandem duplications: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr3	21268652	21268652	0	LOC_Os03g38330
Tandem Duplication	Chr3	21702219	21702219	0	LOC_Os03g39040

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