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Mutant Information

Mutant Name	FN1399-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1399-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: 34

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	40617928	A-C	HOMO	INTRON
SBS	Chr10	12206886	T-C	HOMO	INTERGENIC
SBS	Chr10	258247	G-A	HET	INTERGENIC
SBS	Chr11	11294587	G-A	HET	INTERGENIC
SBS	Chr11	11871467	T-G	HET	INTRON
SBS	Chr11	11879186	A-C	HET	INTERGENIC
SBS	Chr11	215275	G-A	HET	INTERGENIC
SBS	Chr12	24468498	A-T	HOMO	INTERGENIC
SBS	Chr12	27207326	C-A	HOMO	INTERGENIC
SBS	Chr2	14618080	C-T	HET	INTERGENIC
SBS	Chr2	16566195	A-T	HET	INTERGENIC
SBS	Chr2	30277452	G-T	HET	INTRON
SBS	Chr3	1565220	A-T	HET	UTR_3_PRIME
SBS	Chr3	1565221	G-T	HET	UTR_3_PRIME
SBS	Chr3	290288	G-A	HET	INTERGENIC
SBS	Chr3	6889308	A-T	HET	INTERGENIC
SBS	Chr3	8730874	G-A	HET	INTERGENIC
SBS	Chr4	16824835	C-T	HET	INTERGENIC
SBS	Chr4	19950274	G-T	HOMO	INTERGENIC
SBS	Chr4	34563303	T-A	HET	INTERGENIC
SBS	Chr4	6334994	C-A	HET	INTERGENIC
SBS	Chr5	10719932	T-C	HET	INTERGENIC
SBS	Chr5	18870550	G-C	HET	INTRON
SBS	Chr5	7422762	T-C	HET	INTERGENIC
SBS	Chr5	7422781	T-C	HET	INTERGENIC
SBS	Chr6	15933359	T-C	HET	INTERGENIC
SBS	Chr6	1814138	A-T	HET	INTERGENIC
SBS	Chr6	25285806	A-T	HET	INTERGENIC
SBS	Chr6	28057217	A-G	HET	INTRON
SBS	Chr7	27309783	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g45750
SBS	Chr7	5596912	C-T	HOMO	INTERGENIC
SBS	Chr7	6894587	C-T	HOMO	INTERGENIC
SBS	Chr8	14127519	A-T	HET	INTERGENIC
SBS	Chr8	22091462	T-A	HET	INTRON

Deletions: 21

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	1118471	1118472	1
Deletion	Chr8	1662408	1662409	1
Deletion	Chr3	6233761	6233763	2	LOC_Os03g11900
Deletion	Chr6	7282635	7282636	1	LOC_Os06g13240
Deletion	Chr12	8798118	8798133	15
Deletion	Chr10	10540010	10540011	1
Deletion	Chr6	11125884	11125886	2
Deletion	Chr11	14472001	14590000	118000	18
Deletion	Chr12	14878197	14878199	2
Deletion	Chr3	14970649	14970669	20
Deletion	Chr9	15551430	15551433	3
Deletion	Chr4	17050928	17050934	6
Deletion	Chr11	17817790	17817791	1
Deletion	Chr10	18769924	18769934	10
Deletion	Chr5	19481814	19481837	23	LOC_Os05g33220
Deletion	Chr2	20681310	20681316	6
Deletion	Chr1	21742243	21742251	8
Deletion	Chr6	21755037	21755038	1
Deletion	Chr7	23463213	23463214	1
Deletion	Chr7	28947501	28947503	2
Deletion	Chr1	31070299	31070313	14	LOC_Os01g54020

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	35770112	35770113	2
Insertion	Chr1	38967436	38967436	1
Insertion	Chr11	4803269	4803270	2
Insertion	Chr4	17640450	17640451	2
Insertion	Chr4	22823321	22823321	1
Insertion	Chr8	18259694	18259718	25

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	4057235	6613635	2
Inversion	Chr12	4500931	6613409	2
Inversion	Chr3	24204107	25103726	LOC_Os03g44580
Inversion	Chr3	24204128	25103743	LOC_Os03g44580

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	14581685	Chr1	34934433	LOC_Os01g60400
Translocation	Chr11	15714416	Chr9	6778100	LOC_Os11g27329

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