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Mutant Information

Mutant Name	FN1286-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1286-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: 36

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	29076922	C-A	HET	INTERGENIC
SBS	Chr1	29705460	T-A	HET	INTERGENIC
SBS	Chr2	10506171	A-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os02g18080
SBS	Chr2	16549418	T-G	HOMO	INTERGENIC
SBS	Chr2	34342377	G-A	HET	STOP_GAINED	LOC_Os02g56110
SBS	Chr3	8870164	A-G	HET	INTERGENIC
SBS	Chr3	19147630	T-C	HET	SYNONYMOUS_CODING
SBS	Chr3	22517709	G-A	HET	INTERGENIC
SBS	Chr3	25188174	G-A	HET	INTERGENIC
SBS	Chr4	13323661	A-T	HOMO	INTERGENIC
SBS	Chr4	15521128	C-A	HET	INTERGENIC
SBS	Chr4	24784784	T-G	HET	INTERGENIC
SBS	Chr5	1662342	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g03760
SBS	Chr5	20542035	T-C	HET	INTERGENIC
SBS	Chr6	3538809	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g07350
SBS	Chr6	3538812	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g07350
SBS	Chr6	4694835	A-G	HET	INTRON
SBS	Chr6	21850480	C-T	HET	INTRON
SBS	Chr6	29717888	G-A	HOMO	INTERGENIC
SBS	Chr7	2967536	C-A	HOMO	INTERGENIC
SBS	Chr7	7480146	C-T	HOMO	INTERGENIC
SBS	Chr7	17932991	G-A	HET	INTERGENIC
SBS	Chr7	21102989	C-T	HET	INTERGENIC
SBS	Chr7	29501668	A-G	HET	INTRON
SBS	Chr8	5849579	C-A	HOMO	INTRON
SBS	Chr8	6734808	C-T	HET	UTR_5_PRIME
SBS	Chr9	5408035	A-T	HET	INTERGENIC
SBS	Chr9	13142939	G-A	HOMO	UTR_3_PRIME
SBS	Chr9	22168146	A-G	HOMO	INTERGENIC
SBS	Chr10	1212343	A-C	HET	INTERGENIC
SBS	Chr11	4804912	T-C	HOMO	INTERGENIC
SBS	Chr11	4804918	G-C	HOMO	INTERGENIC
SBS	Chr11	15036716	T-G	HET	INTERGENIC
SBS	Chr11	19351414	G-A	HET	INTERGENIC
SBS	Chr12	13259628	C-G	HET	INTRON
SBS	Chr12	26434056	A-T	HOMO	SYNONYMOUS_CODING

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr7	2186107	2186108	1
Deletion	Chr5	4726137	4726142	5
Deletion	Chr7	9027397	9027398	1
Deletion	Chr3	10090001	10153000	63000	7
Deletion	Chr8	10236668	10236672	4
Deletion	Chr4	10321804	10321807	3
Deletion	Chr6	11668603	11668617	14
Deletion	Chr9	13652827	13652828	1
Deletion	Chr6	13759329	13759338	9
Deletion	Chr12	15014898	15014902	4
Deletion	Chr9	16904298	16904304	6
Deletion	Chr2	17121708	17121711	3
Deletion	Chr3	19149109	19149127	18
Deletion	Chr9	22253940	22253973	33
Deletion	Chr11	23669760	23669766	6
Deletion	Chr1	25029047	25029086	39
Deletion	Chr4	26802342	26802346	4
Deletion	Chr1	30977648	30977651	3
Deletion	Chr3	35842162	35842178	16

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr6	30884956	30884957	2
Insertion	Chr1	8956020	8956021	2
Insertion	Chr6	6837138	6837138	1
Insertion	Chr7	12793853	12793855	3
Insertion	Chr7	16289544	16289578	35
Insertion	Chr9	19168294	19168295	2

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	4162779	4999277	LOC_Os01g08450
Inversion	Chr7	23849496	25599460
Inversion	Chr1	31994230	38429296	LOC_Os01g55530
Inversion	Chr1	31994245	38429301	LOC_Os01g55530

No Translocation

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