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Mutant Information

Mutant Name	FN1288-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1288-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: 44

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	14254697	C-T	HET	INTRON
SBS	Chr1	14254699	A-T	HET	INTRON
SBS	Chr1	14611233	G-A	HET	INTERGENIC
SBS	Chr1	20701889	T-G	HET	INTRON
SBS	Chr1	37345729	C-T	HOMO	INTERGENIC
SBS	Chr1	38520174	T-G	HET	UTR_5_PRIME
SBS	Chr2	22306503	C-T	HET	INTERGENIC
SBS	Chr2	34566539	A-T	HOMO	INTERGENIC
SBS	Chr3	10284711	A-G	HET	INTERGENIC
SBS	Chr3	13502297	G-A	HET	INTERGENIC
SBS	Chr3	24518032	A-T	HET	INTRON
SBS	Chr4	2229576	A-T	HOMO	INTRON
SBS	Chr4	7238808	G-A	HET	INTERGENIC
SBS	Chr4	8026704	G-C	HET	INTERGENIC
SBS	Chr4	16348564	T-C	HOMO	INTRON
SBS	Chr4	29055966	T-C	HOMO	INTERGENIC
SBS	Chr4	30739426	A-T	HOMO	INTERGENIC
SBS	Chr4	33298188	A-T	HET	INTERGENIC
SBS	Chr5	2699954	C-T	HET	INTERGENIC
SBS	Chr5	6342881	G-A	HET	INTRON
SBS	Chr5	6639021	C-A	HOMO	INTERGENIC
SBS	Chr6	4150654	G-A	HOMO	INTRON
SBS	Chr6	13021532	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g22400
SBS	Chr6	13246842	A-G	HET	INTERGENIC
SBS	Chr7	11189966	T-G	HET	INTERGENIC
SBS	Chr7	20143810	C-A	HOMO	INTERGENIC
SBS	Chr7	25236545	A-G	HET	INTERGENIC
SBS	Chr7	25236547	A-G	HET	INTERGENIC
SBS	Chr7	27313404	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os07g45750
SBS	Chr8	1816990	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr10	1955936	C-G	HET	INTRON
SBS	Chr10	7222918	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os10g13370
SBS	Chr10	12213495	G-A	HET	INTERGENIC
SBS	Chr10	16691297	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g31820
SBS	Chr10	16691298	C-T	HET	SYNONYMOUS_CODING
SBS	Chr10	19075517	G-T	HOMO	INTERGENIC
SBS	Chr10	19075518	T-A	HOMO	INTERGENIC
SBS	Chr11	500243	G-A	HET	SYNONYMOUS_CODING
SBS	Chr11	4280180	G-A	HOMO	INTERGENIC
SBS	Chr12	14913767	G-A	HET	SYNONYMOUS_CODING
SBS	Chr12	17014451	T-C	HET	INTERGENIC
SBS	Chr12	19158579	C-G	HET	SYNONYMOUS_CODING
SBS	Chr12	19522499	T-A	HOMO	INTERGENIC
SBS	Chr12	27127429	G-A	HOMO	INTERGENIC

Deletions: 25

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	1106001	1162000	56000	9
Deletion	Chr6	1130080	1130081	1
Deletion	Chr9	1892181	1892183	2	LOC_Os09g03750
Deletion	Chr1	2124386	2124397	11
Deletion	Chr5	4666487	4666503	16
Deletion	Chr3	4995280	4995281	1
Deletion	Chr11	6516422	6516434	12
Deletion	Chr12	9768971	9768973	2	LOC_Os12g17070
Deletion	Chr7	11460246	11460254	8
Deletion	Chr11	13504624	13504633	9
Deletion	Chr1	14502071	14502089	18
Deletion	Chr10	17584403	17584408	5
Deletion	Chr12	20286204	20286208	4
Deletion	Chr4	20877304	20877315	11	LOC_Os04g34470
Deletion	Chr12	21900394	21900406	12
Deletion	Chr4	22323802	22323807	5
Deletion	Chr12	22786217	22786226	9
Deletion	Chr3	23196980	23197007	27	LOC_Os03g41770
Deletion	Chr7	23492195	23492198	3	LOC_Os07g39240
Deletion	Chr7	24415957	24415958	1
Deletion	Chr7	26024545	26024554	9
Deletion	Chr3	29112297	29112308	11
Deletion	Chr4	29479988	29479989	1
Deletion	Chr1	38230223	38230228	5	LOC_Os01g65850
Deletion	Chr1	38539978	38539988	10	LOC_Os01g66350

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	4876381	4876381	1
Insertion	Chr9	11332368	11332369	2
Insertion	Chr7	1258693	1258694	2
Insertion	Chr11	4876385	4876385	1

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	18835895	18856689	LOC_Os03g32940

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	13647301	Chr2	10936600	LOC_Os02g18760

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