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Mutant Information

Mutant Name	FN1556-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1556-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal 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: 35

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	16054754	G-A	Homo	UTR_3_PRIME
SBS	Chr1	16902509	G-A	HET	INTERGENIC
SBS	Chr1	22602931	A-T	HET	INTERGENIC
SBS	Chr1	28962461	C-T	Homo	INTERGENIC
SBS	Chr10	2296033	G-A	Homo	INTERGENIC
SBS	Chr11	21092149	C-T	HET	INTERGENIC
SBS	Chr12	10567518	C-T	HET	SYNONYMOUS_CODING
SBS	Chr12	13912591	C-A	HET	INTERGENIC
SBS	Chr12	13912592	T-A	HET	INTERGENIC
SBS	Chr12	14027300	T-A	HET	INTRON
SBS	Chr12	17190377	G-A	HET	STOP_GAINED	LOC_Os12g29030
SBS	Chr12	19967854	G-A	HET	INTERGENIC
SBS	Chr2	12888972	A-G	Homo	INTERGENIC
SBS	Chr2	16147394	G-C	HET	INTERGENIC
SBS	Chr3	12169676	T-A	HET	INTERGENIC
SBS	Chr3	18699629	G-C	Homo	INTERGENIC
SBS	Chr3	2989542	A-T	HET	INTERGENIC
SBS	Chr3	2989543	A-T	HET	INTERGENIC
SBS	Chr3	2989544	A-T	HET	INTERGENIC
SBS	Chr4	12711656	G-A	HET	INTERGENIC
SBS	Chr4	13090814	A-G	HET	INTERGENIC
SBS	Chr4	14547660	G-A	Homo	INTERGENIC
SBS	Chr4	16339023	G-A	HET	SYNONYMOUS_CODING
SBS	Chr4	19371078	G-A	HET	UTR_3_PRIME
SBS	Chr4	22920551	G-A	HET	INTRON
SBS	Chr4	3825208	T-C	HET	SPLICE_SITE_REGION
SBS	Chr5	3579783	C-T	Homo	INTERGENIC
SBS	Chr6	2817414	A-C	HET	INTERGENIC
SBS	Chr7	17853750	C-T	Homo	INTRON
SBS	Chr7	2396868	A-G	Homo	INTERGENIC
SBS	Chr8	15307845	G-A	Homo	INTRON
SBS	Chr8	18347535	C-A	Homo	INTRON
SBS	Chr8	19010561	G-C	Homo	INTERGENIC
SBS	Chr8	3943340	C-T	HET	INTRON
SBS	Chr9	670378	A-G	HET	INTERGENIC

Deletions: 28

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	1698119	1698142	23
Deletion	Chr3	1942987	1942988	1
Deletion	Chr5	2154092	2154093	1
Deletion	Chr5	4841142	4841143	1
Deletion	Chr7	5227722	5227733	11
Deletion	Chr9	5571354	5571355	1
Deletion	Chr1	6260669	6260674	5
Deletion	Chr7	8067604	8067613	9
Deletion	Chr4	13211524	13211525	1
Deletion	Chr2	13308213	13308218	5
Deletion	Chr4	13345833	13345837	4
Deletion	Chr5	13760205	13760217	12
Deletion	Chr2	14526017	14526018	1
Deletion	Chr3	18146623	18146629	6
Deletion	Chr9	18399984	18399985	1
Deletion	Chr4	22739525	22739526	1
Deletion	Chr5	24498360	24498361	1	LOC_Os05g41830
Deletion	Chr1	26013566	26014227	661
Deletion	Chr2	26577556	26577558	2
Deletion	Chr7	26843150	26843162	12
Deletion	Chr8	27625588	27625590	2
Deletion	Chr7	28335216	28335218	2
Deletion	Chr6	29190528	29190532	4
Deletion	Chr5	29560011	29560014	3
Deletion	Chr2	30816847	30816851	4
Deletion	Chr2	31627041	31627045	4
Deletion	Chr2	34626689	34626690	1
Deletion	Chr1	37545585	37545586	1

Insertions: 18

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr10	3246058	3246058	1
Insertion	Chr12	20179144	20179146	3
Insertion	Chr12	20273415	20273416	2
Insertion	Chr12	8086645	8086645	1
Insertion	Chr2	17000809	17000855	47
Insertion	Chr3	23125839	23125844	6
Insertion	Chr3	25528256	25528276	21
Insertion	Chr3	25768971	25768971	1
Insertion	Chr3	28982499	28982500	2
Insertion	Chr4	28949468	28949468	1
Insertion	Chr4	35341328	35341328	1
Insertion	Chr5	16875749	16875749	1
Insertion	Chr5	19071866	19071868	3	LOC_Os05g32580
Insertion	Chr5	27863457	27863460	4
Insertion	Chr6	10332334	10332334	1	LOC_Os06g17820
Insertion	Chr7	24240074	24240104	31
Insertion	Chr9	4100788	4100788	1
Insertion	Chr9	8846950	8846991	42

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	5500194	5507540
Inversion	Chr6	6182767	6228647	LOC_Os06g11750
Inversion	Chr12	13160603	15654255	LOC_Os12g26710
Inversion	Chr12	13160617	15654259	LOC_Os12g26710

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	982477	Chr1	11835703	LOC_Os01g21210
Translocation	Chr12	982485	Chr1	11836706	LOC_Os01g21210

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