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Mutant Information

Mutant Name	FN1545-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1545-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000346 (Tiller number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 39

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	7838755	G-A	HET	INTERGENIC
SBS	Chr1	10270150	G-A	HET	INTERGENIC
SBS	Chr1	10270153	T-A	HET	INTERGENIC
SBS	Chr1	18902166	G-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os01g34290
SBS	Chr2	30277452	G-T	HET	INTRON
SBS	Chr3	32576356	T-G	Homo	INTERGENIC
SBS	Chr4	12309433	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g21750
SBS	Chr4	28000604	T-A	HET	INTERGENIC
SBS	Chr4	29973398	G-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os04g50212
SBS	Chr4	34563303	T-A	Homo	INTERGENIC
SBS	Chr5	25103579	T-A	HET	INTERGENIC
SBS	Chr6	24786780	T-A	HET	INTERGENIC
SBS	Chr6	26228824	T-A	HET	INTERGENIC
SBS	Chr7	7270827	G-A	HET	INTERGENIC
SBS	Chr7	7270828	G-C	HET	INTERGENIC
SBS	Chr7	9383842	G-A	HET	INTERGENIC
SBS	Chr7	9384462	G-A	HET	INTERGENIC
SBS	Chr7	11860821	C-A	Homo	INTRON
SBS	Chr8	5618421	C-T	HET	INTERGENIC
SBS	Chr8	5618435	A-G	HET	INTERGENIC
SBS	Chr8	12104145	G-A	Homo	INTERGENIC
SBS	Chr9	1706767	C-T	HET	INTERGENIC
SBS	Chr9	5823390	G-A	HET	INTRON
SBS	Chr9	20902887	A-G	Homo	SYNONYMOUS_CODING
SBS	Chr10	1787925	G-T	HET	INTRON
SBS	Chr10	5506884	T-C	HET	INTERGENIC
SBS	Chr10	10006385	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g19950
SBS	Chr10	12206886	T-C	HET	INTERGENIC
SBS	Chr10	13465284	A-T	HET	INTERGENIC
SBS	Chr10	14143683	G-A	HET	INTERGENIC
SBS	Chr10	16312027	G-T	HET	INTERGENIC
SBS	Chr10	16579219	G-A	HET	INTERGENIC
SBS	Chr11	11424069	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os11g19830
SBS	Chr11	12308539	A-C	HET	INTERGENIC
SBS	Chr11	19163408	T-C	HET	INTERGENIC
SBS	Chr12	9549667	A-T	Homo	INTERGENIC
SBS	Chr12	11221149	G-C	Homo	INTRON
SBS	Chr12	26795868	G-T	HET	INTRON
SBS	Chr12	27207326	C-A	HET	INTERGENIC

Deletions: 33

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	974898	974932	34	LOC_Os04g02600
Deletion	Chr6	1118471	1118472	1
Deletion	Chr7	2705158	2705159	1
Deletion	Chr8	3240255	3240256	1
Deletion	Chr4	3738683	3738684	1	LOC_Os04g07010
Deletion	Chr9	3954988	3954992	4
Deletion	Chr3	4449731	4449732	1
Deletion	Chr1	6534295	6534297	2
Deletion	Chr10	6990835	6990837	2	LOC_Os10g12560
Deletion	Chr9	8579156	8579157	1
Deletion	Chr6	8735979	8738171	2192
Deletion	Chr12	13447089	13447095	6
Deletion	Chr8	14433740	14433742	2
Deletion	Chr7	14597665	14597666	1
Deletion	Chr4	14862784	14862787	3
Deletion	Chr7	15006237	15006251	14
Deletion	Chr9	15321726	15321744	18	LOC_Os09g25540
Deletion	Chr10	15331001	15392000	61000	9
Deletion	Chr1	15900994	15900996	2
Deletion	Chr10	16455888	16455902	14
Deletion	Chr12	16907389	16907396	7
Deletion	Chr10	18280385	18280401	16
Deletion	Chr2	18284055	18284058	3
Deletion	Chr2	20205547	20205560	13
Deletion	Chr7	20523001	20607000	84000	11
Deletion	Chr5	21093441	21093445	4
Deletion	Chr12	23920580	23920582	2
Deletion	Chr6	25196304	25196332	28
Deletion	Chr6	25803829	25803834	5
Deletion	Chr3	26590677	26590680	3
Deletion	Chr11	28227723	28239026	11303	3
Deletion	Chr4	35126752	35126754	2
Deletion	Chr1	37274961	37274964	3

Insertions: 17

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr11	24283198	24283199	2
Insertion	Chr8	3629239	3629239	1
Insertion	Chr11	27231745	27231745	1
Insertion	Chr1	26507811	26507811	1
Insertion	Chr2	4541186	4541187	2
Insertion	Chr3	25245605	25245636	32
Insertion	Chr3	30032344	30032346	3
Insertion	Chr4	7379568	7379597	30
Insertion	Chr5	20055491	20055491	1
Insertion	Chr6	9879367	9879367	1
Insertion	Chr6	15541717	15541717	1
Insertion	Chr7	4598446	4598469	24
Insertion	Chr8	3505574	3505574	1
Insertion	Chr8	7126105	7126105	1
Insertion	Chr9	15512942	15512942	1
Insertion	Chr11	7288552	7288563	12	LOC_Os11g12850
Insertion	Chr11	9366035	9366044	10

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	15114685	15519527	LOC_Os07g26290
Inversion	Chr7	15518399	15519409
Inversion	Chr12	25152233	25816187	LOC_Os12g41700

Translocations: 7

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	2456612	Chr3	16176432
Translocation	Chr10	2456633	Chr3	16401177
Translocation	Chr12	7180823	Chr1	6636357	LOC_Os01g12170
Translocation	Chr10	15330460	Chr3	27084109	LOC_Os10g29495
Translocation	Chr10	17512076	Chr2	24919193	LOC_Os02g41550
Translocation	Chr10	17512079	Chr2	24919196	LOC_Os02g41550
Translocation	Chr10	18821061	Chr3	27084932

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr10	15399015	18820895	3421880	495

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