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Mutant Information

Mutant Name	FN1124-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1124-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Normal (Between 75% and 125%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Phenotype Changes (Hover to Zoom-In)
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 35

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13308981	G-C	HET	INTERGENIC
SBS	Chr1	17043865	C-T	HET	INTERGENIC
SBS	Chr1	20225304	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr1	3493027	T-C	HET	INTERGENIC
SBS	Chr1	36386565	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g62820
SBS	Chr1	6280259	A-G	HET	UTR_3_PRIME
SBS	Chr11	10691514	G-T	HET	INTERGENIC
SBS	Chr11	11101912	A-G	HET	INTERGENIC
SBS	Chr11	18597147	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g31720
SBS	Chr11	20289955	A-G	HET	INTERGENIC
SBS	Chr11	27705912	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os11g45790
SBS	Chr11	5165402	G-A	HET	SYNONYMOUS_CODING
SBS	Chr12	12562005	G-A	HOMO	INTERGENIC
SBS	Chr12	1583162	T-A	HOMO	INTERGENIC
SBS	Chr12	1835714	C-T	HOMO	INTERGENIC
SBS	Chr2	1565670	T-A	HOMO	INTERGENIC
SBS	Chr2	16497120	G-A	HET	INTRON
SBS	Chr2	5177504	G-A	HOMO	INTERGENIC
SBS	Chr2	8620687	C-T	HOMO	INTERGENIC
SBS	Chr3	18668882	A-G	HOMO	INTERGENIC
SBS	Chr3	9934563	C-T	HET	INTRON
SBS	Chr4	2007049	C-A	HOMO	STOP_GAINED	LOC_Os04g04290
SBS	Chr4	8089257	T-A	HOMO	UTR_5_PRIME
SBS	Chr5	16527997	T-C	HET	INTERGENIC
SBS	Chr5	27932748	G-A	HET	INTERGENIC
SBS	Chr6	6394367	G-A	HOMO	INTERGENIC
SBS	Chr6	8491972	T-A	HET	INTRON
SBS	Chr7	10416068	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os07g17630
SBS	Chr8	161789	G-A	HOMO	INTERGENIC
SBS	Chr8	188810	T-A	HOMO	INTRON
SBS	Chr8	19837162	C-T	HOMO	INTERGENIC
SBS	Chr8	22362782	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g35490
SBS	Chr8	4102973	A-T	HET	INTERGENIC
SBS	Chr8	8314448	A-C	HET	INTERGENIC
SBS	Chr8	9295657	T-A	HET	INTERGENIC

Deletions: 20

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	55001	325000	270000	40
Deletion	Chr3	4937660	4937671	11
Deletion	Chr10	5990645	5990647	2
Deletion	Chr5	10207440	10207450	10
Deletion	Chr9	10828356	10828463	107
Deletion	Chr3	11249633	11249646	13
Deletion	Chr7	13088211	13088212	1	LOC_Os07g23220
Deletion	Chr11	13091414	13091415	1
Deletion	Chr1	17676109	17676112	3
Deletion	Chr2	19577666	19577669	3
Deletion	Chr6	21958825	21958831	6
Deletion	Chr8	22002998	22003015	17
Deletion	Chr5	22439261	22439271	10
Deletion	Chr11	23110694	23110703	9
Deletion	Chr6	24599495	24599507	12
Deletion	Chr1	25113728	25113730	2
Deletion	Chr2	27945741	27945764	23
Deletion	Chr5	28810461	28837949	27488	6
Deletion	Chr4	29365741	29365747	6
Deletion	Chr4	34590915	34611994	21079	4

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	1551778	1551778	1
Insertion	Chr2	24894725	24894727	3
Insertion	Chr7	7499018	7499026	9
Insertion	Chr9	15545377	15545378	2

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	7301144	7397105
Inversion	Chr1	7301169	7397110
Inversion	Chr5	8159181	29294247	LOC_Os05g51050
Inversion	Chr5	8159841	29294234	LOC_Os05g51050

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	2121768	Chr1	31762827	LOC_Os01g55200
Translocation	Chr5	2122717	Chr1	31762794	LOC_Os01g55200

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