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Mutant Information

Mutant Name	FN1513-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1513-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: 32

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	32006254	C-G	HET	INTERGENIC
SBS	Chr1	42867354	T-A	HET	INTERGENIC
SBS	Chr2	23781800	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os02g39410
SBS	Chr2	26164165	T-C	HET	UTR_5_PRIME
SBS	Chr2	33406552	A-T	HET	INTERGENIC
SBS	Chr3	23552634	C-T	Homo	INTERGENIC
SBS	Chr3	31014688	A-G	Homo	INTERGENIC
SBS	Chr4	32689492	A-T	HET	INTERGENIC
SBS	Chr5	4582177	C-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os05g08400
SBS	Chr5	21261984	G-A	HET	INTERGENIC
SBS	Chr5	21809121	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g37270
SBS	Chr5	28042453	G-T	HET	SPLICE_SITE_REGION
SBS	Chr6	3335126	C-A	HET	INTERGENIC
SBS	Chr6	7757460	T-G	HET	INTERGENIC
SBS	Chr6	16081697	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g28310
SBS	Chr6	18079454	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g31090
SBS	Chr7	8716231	A-G	Homo	INTERGENIC
SBS	Chr8	5044611	G-A	HET	INTERGENIC
SBS	Chr9	2840093	C-A	HET	INTERGENIC
SBS	Chr9	8330241	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g14070
SBS	Chr9	8829481	C-G	HET	INTERGENIC
SBS	Chr9	20008035	C-A	Homo	INTERGENIC
SBS	Chr10	13755282	A-C	HET	INTERGENIC
SBS	Chr10	18392026	G-T	HET	INTRON
SBS	Chr11	11193685	A-C	HET	INTRON
SBS	Chr11	11193692	C-A	HET	INTRON
SBS	Chr11	12582569	G-T	HET	SYNONYMOUS_CODING
SBS	Chr11	13471058	A-C	HET	INTERGENIC
SBS	Chr12	2559991	G-A	HET	INTERGENIC
SBS	Chr12	4646173	C-A	HET	INTRON
SBS	Chr12	8390204	G-T	HET	INTERGENIC
SBS	Chr12	12275983	A-G	HET	INTERGENIC

Deletions: 36

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	2758693	2758710	17
Deletion	Chr4	3503031	3503041	10
Deletion	Chr4	6009229	6009237	8
Deletion	Chr8	6473173	6473175	2
Deletion	Chr8	6485114	6485117	3
Deletion	Chr8	7133241	7133242	1
Deletion	Chr10	7253052	7253054	2
Deletion	Chr2	8448572	8448580	8	LOC_Os02g15150
Deletion	Chr4	8761071	8761081	10
Deletion	Chr12	8785641	8786198	557
Deletion	Chr9	8829498	8829499	1
Deletion	Chr6	9491333	9491334	1
Deletion	Chr2	10755880	10755881	1
Deletion	Chr11	10763950	10763953	3
Deletion	Chr9	11683526	11683530	4
Deletion	Chr9	12463779	12463807	28
Deletion	Chr12	12471599	12471608	9
Deletion	Chr3	13557244	13557246	2
Deletion	Chr2	13687101	13687115	14
Deletion	Chr7	16862756	16862757	1
Deletion	Chr10	17173098	17173100	2
Deletion	Chr4	19002289	19002292	3
Deletion	Chr1	20552468	20553616	1148	LOC_Os01g36900
Deletion	Chr1	20689153	20689345	192	LOC_Os01g37070
Deletion	Chr11	21378429	21378438	9
Deletion	Chr5	21671019	21671029	10
Deletion	Chr5	23829973	23829982	9
Deletion	Chr1	25362606	25362610	4
Deletion	Chr5	26132757	26132760	3
Deletion	Chr5	26306127	26306128	1
Deletion	Chr4	26365860	26365861	1	LOC_Os04g44530
Deletion	Chr8	27043359	27043373	14
Deletion	Chr5	27369759	27369760	1
Deletion	Chr1	28208114	28208119	5
Deletion	Chr2	34927878	34927883	5
Deletion	Chr1	36336983	36336986	3

Insertions: 18

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr10	22792102	22792106	5
Insertion	Chr1	25218641	25218649	9	LOC_Os01g44010
Insertion	Chr2	6882883	6882884	2
Insertion	Chr2	9555651	9555671	21	LOC_Os02g16740
Insertion	Chr3	11386424	11386424	1
Insertion	Chr3	19260500	19260500	1
Insertion	Chr6	1298150	1298211	62
Insertion	Chr6	18289538	18289538	1
Insertion	Chr6	25854082	25854082	1
Insertion	Chr8	2724477	2724478	2
Insertion	Chr8	20336766	20336779	14
Insertion	Chr9	4858024	4858024	1
Insertion	Chr9	10327470	10327471	2
Insertion	Chr9	10375484	10375537	54	LOC_Os09g16970
Insertion	Chr10	10336820	10336841	22
Insertion	Chr10	20234728	20234728	1
Insertion	Chr11	10744716	10744716	1
Insertion	Chr12	10878629	10878629	1	LOC_Os12g18790

Inversions: 6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	236414	757950	LOC_Os05g01400
Inversion	Chr1	7111971	7154596
Inversion	Chr1	7154616	7419360	LOC_Os01g13300
Inversion	Chr9	9667905	9779282	LOC_Os09g16000
Inversion	Chr9	11471235	11818821	2
Inversion	Chr5	19607036	19876126	LOC_Os05g33380

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	4091229	Chr7	16953676	LOC_Os07g28910
Translocation	Chr9	11470002	Chr6	5619892	LOC_Os06g10760
Translocation	Chr9	11470095	Chr6	5619320	LOC_Os06g10760

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