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Mutant Information

Mutant Name	FN1366-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1366-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: 46

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1255994	G-A	HET	INTERGENIC
SBS	Chr1	1849064	C-T	HET	UTR_3_PRIME
SBS	Chr1	9742406	T-A	HOMO	INTRON
SBS	Chr1	10565053	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g18744
SBS	Chr1	12513187	G-A	HOMO	INTRON
SBS	Chr1	21428496	C-G	HOMO	INTRON
SBS	Chr1	35555869	A-T	HET	INTERGENIC
SBS	Chr1	40765469	C-T	HET	INTERGENIC
SBS	Chr2	5283200	T-G	HET	INTERGENIC
SBS	Chr2	6826952	A-G	HET	INTRON
SBS	Chr2	6830149	G-T	HET	INTERGENIC
SBS	Chr2	8296498	G-C	HET	INTERGENIC
SBS	Chr2	14009492	G-A	HET	INTRON
SBS	Chr2	22327773	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g36960
SBS	Chr2	30821913	A-C	HOMO	INTERGENIC
SBS	Chr3	3623580	G-A	HET	INTERGENIC
SBS	Chr3	20845672	C-T	HET	INTRON
SBS	Chr3	23500503	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os03g42240
SBS	Chr4	3077745	A-C	HET	INTERGENIC
SBS	Chr4	3574889	A-G	HET	INTERGENIC
SBS	Chr4	8184388	G-A	HET	INTRON
SBS	Chr4	26849222	G-C	HOMO	INTERGENIC
SBS	Chr5	3270344	C-A	HOMO	SYNONYMOUS_CODING
SBS	Chr5	3271068	T-C	HOMO	SYNONYMOUS_CODING
SBS	Chr5	5435539	C-A	HET	INTERGENIC
SBS	Chr5	15305393	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr5	19784657	C-T	HET	UTR_5_PRIME
SBS	Chr5	20656742	C-A	HET	INTERGENIC
SBS	Chr5	21273092	C-G	HET	SYNONYMOUS_CODING
SBS	Chr6	7797539	G-C	HOMO	INTERGENIC
SBS	Chr6	16359953	C-T	HET	INTERGENIC
SBS	Chr6	16822381	C-A	HET	INTERGENIC
SBS	Chr6	17039820	G-T	HET	INTERGENIC
SBS	Chr6	17039821	A-G	HET	INTERGENIC
SBS	Chr7	8867456	T-A	HET	INTERGENIC
SBS	Chr7	9730111	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os07g16590
SBS	Chr7	20767926	G-A	HET	INTRON
SBS	Chr7	23815365	T-G	HET	INTRON
SBS	Chr8	20521428	A-G	HET	INTERGENIC
SBS	Chr9	3316852	C-A	HOMO	INTERGENIC
SBS	Chr9	21517927	T-G	HET	INTERGENIC
SBS	Chr10	14324351	T-A	HET	INTRON
SBS	Chr10	17017664	T-A	HOMO	INTERGENIC
SBS	Chr11	20155646	T-C	HET	INTERGENIC
SBS	Chr12	10943526	A-T	HOMO	INTERGENIC
SBS	Chr12	13639822	G-A	HOMO	INTERGENIC

Deletions: 28

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	974023	974024	1
Deletion	Chr2	3038135	3038144	9	LOC_Os02g06090
Deletion	Chr5	3101363	3101369	6
Deletion	Chr3	3430196	3430200	4
Deletion	Chr5	5822986	5822999	13
Deletion	Chr5	7336336	7336337	1
Deletion	Chr12	8125517	8125532	15
Deletion	Chr8	11441025	11441026	1
Deletion	Chr8	11983579	11983597	18	LOC_Os08g20010
Deletion	Chr10	12957131	12957132	1
Deletion	Chr6	14242065	14242070	5
Deletion	Chr8	16403001	16434000	31000	4
Deletion	Chr12	16898852	16898864	12
Deletion	Chr6	17995029	17995041	12	LOC_Os06g30930
Deletion	Chr8	19248908	19248909	1
Deletion	Chr3	20106412	20106413	1	LOC_Os03g36239
Deletion	Chr4	21739134	21739135	1	LOC_Os04g35670
Deletion	Chr7	21848472	21848496	24
Deletion	Chr4	22002222	22002223	1
Deletion	Chr7	22310134	22310175	41
Deletion	Chr8	22899437	22899438	1
Deletion	Chr7	23673891	23673928	37
Deletion	Chr8	23883710	23883712	2
Deletion	Chr8	23954295	23954304	9
Deletion	Chr4	26374767	26374770	3	LOC_Os04g44550
Deletion	Chr2	27196439	27196453	14
Deletion	Chr2	32627697	32627699	2
Deletion	Chr4	34437373	34437384	11	LOC_Os04g57830

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	28901005	28901005	1
Insertion	Chr6	7530175	7530175	1
Insertion	Chr9	5020072	5020073	2

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2
Inversion	Chr8	16993323	17553464
Inversion	Chr7	20693966	21650853
Inversion	Chr7	20693981	21650852

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	11009299	Chr10	2076721
Translocation	Chr7	21657366	Chr4	31867777	LOC_Os07g36230

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