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Mutant Information

Mutant Name	FN3067-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN3067-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	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: 27

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr11	14801621	A-T	HET	INTERGENIC
SBS	Chr11	15897955	G-A	HOMO	INTERGENIC
SBS	Chr3	11485531	C-A	HET	INTERGENIC
SBS	Chr3	19722859	A-T	HET	INTERGENIC
SBS	Chr3	22018408	C-A	HET	INTRON
SBS	Chr3	25084805	A-G	HOMO	INTERGENIC
SBS	Chr3	27994527	C-T	HOMO	INTERGENIC
SBS	Chr3	34494609	A-G	HET	INTRON
SBS	Chr3	7911689	C-T	HET	INTERGENIC
SBS	Chr4	21721511	G-A	HET	INTERGENIC
SBS	Chr4	30952304	G-A	HOMO	INTERGENIC
SBS	Chr5	10480302	T-C	HET	INTERGENIC
SBS	Chr5	133468	G-A	HET	INTERGENIC
SBS	Chr5	16690296	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os05g28500
SBS	Chr5	24451797	C-A	HOMO	INTERGENIC
SBS	Chr5	24608300	A-G	HOMO	INTERGENIC
SBS	Chr5	5082164	A-T	HOMO	INTERGENIC
SBS	Chr5	7229018	G-A	HOMO	INTERGENIC
SBS	Chr7	20326483	T-C	HET	INTERGENIC
SBS	Chr7	20691261	T-C	HET	UTR_3_PRIME
SBS	Chr7	23619309	A-T	HET	INTERGENIC
SBS	Chr8	14927390	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os08g24700
SBS	Chr8	5194750	G-A	HET	INTERGENIC
SBS	Chr8	5529014	G-A	HET	INTERGENIC
SBS	Chr9	10294710	T-A	HET	INTERGENIC
SBS	Chr9	2582478	G-A	HET	SYNONYMOUS_CODING
SBS	Chr9	3297420	G-A	HET	INTERGENIC

Deletions: 87

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	179001	190000	10999	2
Deletion	Chr10	1022001	1039000	16999	2
Deletion	Chr11	1203001	1227000	23999	3
Deletion	Chr2	1418001	1429000	10999	3
Deletion	Chr3	1959977	1959980	3
Deletion	Chr9	2203001	2217000	13999	3
Deletion	Chr4	2863397	2863412	15
Deletion	Chr9	4311001	4327000	15999	2
Deletion	Chr1	5189001	5201000	11999	2
Deletion	Chr9	5260299	5260300	1	LOC_Os09g09720
Deletion	Chr9	5480001	5493000	12999	2
Deletion	Chr10	5513261	5513262	1
Deletion	Chr4	5615001	5629000	13999	LOC_Os04g11165
Deletion	Chr9	5768749	5768767	18
Deletion	Chr9	5903001	5912000	8999	2
Deletion	Chr7	6160026	6160027	1
Deletion	Chr10	6198001	6221000	22999	4
Deletion	Chr11	7599001	7612000	12999	LOC_Os11g13900
Deletion	Chr9	7607268	7607269	1
Deletion	Chr12	7626001	7637000	10999	LOC_Os12g14260
Deletion	Chr5	7873001	7888000	14999	2
Deletion	Chr7	8387001	8402000	14999	2
Deletion	Chr4	8953683	8953738	55
Deletion	Chr7	9086001	9100000	13999	2
Deletion	Chr7	9167236	9167237	1
Deletion	Chr5	9197001	9214000	16999	2
Deletion	Chr1	9548001	9560000	11999
Deletion	Chr11	9656001	9669000	12999	2
Deletion	Chr11	9712001	9726000	13999	3
Deletion	Chr5	9786001	10016000	229999	33
Deletion	Chr5	10021001	10044000	22999	2
Deletion	Chr5	10058001	10189000	130999	17
Deletion	Chr5	10201001	10373000	171999	27
Deletion	Chr4	10244001	10266000	21999	5
Deletion	Chr5	10300460	10300461	1
Deletion	Chr5	10371168	10371169	1
Deletion	Chr5	10376001	10526000	149999	24
Deletion	Chr5	10630001	10679000	48999	6
Deletion	Chr5	10649631	10649632	1
Deletion	Chr4	10862001	10878000	15999	4
Deletion	Chr9	11026001	11053000	26999	2
Deletion	Chr6	11245776	11245777	1
Deletion	Chr4	12071001	12092000	20999	4
Deletion	Chr6	12287001	12303000	15999	4
Deletion	Chr5	12628001	12660000	31999	3
Deletion	Chr5	12663001	12679000	15999	2
Deletion	Chr10	13223458	13223469	11
Deletion	Chr12	13377146	13377231	85
Deletion	Chr9	13930097	13930102	5
Deletion	Chr1	14028969	14028970	1
Deletion	Chr6	14229001	14241000	11999
Deletion	Chr2	14391395	14391397	2	LOC_Os02g24800
Deletion	Chr9	14504962	14504967	5
Deletion	Chr11	14641001	14664000	22999	6
Deletion	Chr2	14700001	14731000	30999	4
Deletion	Chr6	14781485	14781486	1	LOC_Os06g25270
Deletion	Chr1	14939001	14949000	9999	2
Deletion	Chr3	15805001	15824000	18999	4
Deletion	Chr1	15894423	15894424	1
Deletion	Chr4	16597001	16626000	28999	4
Deletion	Chr10	17340129	17340139	10
Deletion	Chr4	17451027	17451091	64
Deletion	Chr3	18069001	18079000	9999	2
Deletion	Chr1	18899009	18899010	1
Deletion	Chr4	19608791	19608795	4	LOC_Os04g32570
Deletion	Chr11	20488457	20488460	3
Deletion	Chr1	20636001	20659000	22999	3
Deletion	Chr2	21204001	21214000	9999	2
Deletion	Chr10	21537399	21537407	8
Deletion	Chr2	22118001	22141000	22999	5
Deletion	Chr3	22353001	22366000	12999	4
Deletion	Chr8	22727921	22727923	2
Deletion	Chr6	24415001	24429000	13999	LOC_Os06g40950
Deletion	Chr11	24677001	24698000	20999	2
Deletion	Chr8	24923957	24923962	5
Deletion	Chr11	25740024	25740027	3
Deletion	Chr12	26032001	26047000	14999	4
Deletion	Chr3	26243809	26243811	2
Deletion	Chr7	26891001	26904000	12999	3
Deletion	Chr8	28282533	28282537	4
Deletion	Chr6	29461484	29461487	3
Deletion	Chr3	30647832	30647838	6
Deletion	Chr3	30647846	30647852	6
Deletion	Chr1	32342484	32342485	1
Deletion	Chr4	33293328	33293370	42
Deletion	Chr1	38652064	38652072	8
Deletion	Chr1	40346001	40366000	19999	LOC_Os01g70940

Insertions: 20

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	21005996	21005996	1
Insertion	Chr10	4486016	4486016	1
Insertion	Chr11	4650373	4650382	10
Insertion	Chr12	12616516	12616516	1
Insertion	Chr12	22116317	22116320	4
Insertion	Chr4	14679624	14679625	2
Insertion	Chr4	4021831	4021831	1
Insertion	Chr5	10292886	10292886	1
Insertion	Chr5	10317626	10317626	1
Insertion	Chr5	10317829	10317829	1
Insertion	Chr5	10431881	10431881	1
Insertion	Chr6	28707105	28707105	1
Insertion	Chr7	17734106	17734106	1
Insertion	Chr7	8766718	8766718	1	LOC_Os07g15210
Insertion	Chr7	9892461	9892461	1
Insertion	Chr8	12442705	12442705	1
Insertion	Chr8	6625934	6625934	1
Insertion	Chr8	8547102	8547102	1
Insertion	Chr9	12056059	12056059	1
Insertion	Chr9	5920546	5920547	2

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	34597026	35113061

Translocations: 14

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	516904	Chr7	11770274
Translocation	Chr12	2005847	Chr2	19681000
Translocation	Chr12	6229548	Chr2	27057759
Translocation	Chr11	8196161	Chr7	11141499
Translocation	Chr10	8778262	Chr9	10566383	2
Translocation	Chr8	14757240	Chr2	31803319
Translocation	Chr8	14757409	Chr2	31803320
Translocation	Chr10	15151363	Chr5	26317302	LOC_Os10g29090
Translocation	Chr10	15151378	Chr1	3134836	2
Translocation	Chr12	17347650	Chr4	2085444
Translocation	Chr8	19434238	Chr6	494463
Translocation	Chr3	22753954	Chr1	37534642
Translocation	Chr3	22753970	Chr1	38541764
Translocation	Chr11	24593816	Chr6	26017510

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