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Mutant Information

Mutant Name	FN1472-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1472-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) = Low (Between 25% and 75%) 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	15270616	C-T	HET	INTERGENIC
SBS	Chr1	16675101	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os01g29760
SBS	Chr1	19502424	G-A	HET	INTERGENIC
SBS	Chr1	37076906	T-A	Homo	INTRON
SBS	Chr1	38785742	G-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os01g66790
SBS	Chr2	7574285	T-G	HET	INTERGENIC
SBS	Chr2	26459363	A-G	Homo	INTERGENIC
SBS	Chr2	31895947	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g52110
SBS	Chr3	7774225	A-G	Homo	INTRON
SBS	Chr3	15805528	T-G	Homo	INTERGENIC
SBS	Chr3	17087020	T-C	Homo	INTRON
SBS	Chr4	16329859	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g27620
SBS	Chr4	26540110	T-A	Homo	INTERGENIC
SBS	Chr4	32143839	G-A	HET	INTERGENIC
SBS	Chr5	2362956	A-T	Homo	INTERGENIC
SBS	Chr5	24372127	C-A	HET	INTRON
SBS	Chr5	26777431	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr7	8364551	C-G	HET	INTRON
SBS	Chr7	13208005	A-T	Homo	INTERGENIC
SBS	Chr8	4283407	C-A	HET	INTERGENIC
SBS	Chr8	15854856	C-T	Homo	INTERGENIC
SBS	Chr9	796517	G-A	HET	INTERGENIC
SBS	Chr9	4076503	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g07940
SBS	Chr9	13946838	C-T	Homo	INTERGENIC
SBS	Chr10	476949	T-A	HET	INTERGENIC
SBS	Chr10	1076482	C-T	HET	INTERGENIC
SBS	Chr10	2799688	G-A	HET	INTERGENIC
SBS	Chr11	10230926	G-C	HET	INTRON
SBS	Chr11	15096452	C-T	HET	INTERGENIC
SBS	Chr11	26103137	C-G	Homo	INTRON
SBS	Chr12	11633054	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os12g19980
SBS	Chr12	20002300	G-A	HET	INTERGENIC

Deletions: 37

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	27014	27043	29
Deletion	Chr2	796475	796477	2
Deletion	Chr3	1105932	1105933	1
Deletion	Chr6	1129025	1143850	14825	5
Deletion	Chr7	1431559	1431562	3
Deletion	Chr5	2272219	2272225	6
Deletion	Chr1	2738970	2739029	59
Deletion	Chr2	4314951	4314952	1
Deletion	Chr2	8154717	8156982	2265
Deletion	Chr9	8251983	8251990	7
Deletion	Chr4	11007156	11007166	10
Deletion	Chr2	12907813	12910763	2950	2
Deletion	Chr5	13238808	13238881	73
Deletion	Chr3	15536408	15548121	11713	2
Deletion	Chr11	15744004	15744008	4
Deletion	Chr3	16104274	16104285	11
Deletion	Chr8	16462265	16462309	44
Deletion	Chr7	16772383	16772385	2	LOC_Os07g28650
Deletion	Chr2	16885854	16895155	9301	LOC_Os02g28550
Deletion	Chr2	16893662	16893667	5
Deletion	Chr10	16950892	16950893	1
Deletion	Chr6	18706189	18706192	3
Deletion	Chr5	20081450	20081451	1
Deletion	Chr5	21534426	21534427	1
Deletion	Chr2	21668410	21668419	9
Deletion	Chr6	21994717	21994724	7
Deletion	Chr1	23232800	23232801	1
Deletion	Chr5	23697385	23697386	1	LOC_Os05g40320
Deletion	Chr6	24359564	24359565	1
Deletion	Chr4	24984754	24984765	11
Deletion	Chr12	26475622	26475623	1
Deletion	Chr2	29936524	29936531	7
Deletion	Chr4	30118458	30118462	4
Deletion	Chr4	31013695	31013696	1
Deletion	Chr4	31904450	31904453	3	LOC_Os04g53540
Deletion	Chr4	32107427	32107440	13
Deletion	Chr1	34187307	34187312	5

Insertions: 16

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr12	21983154	21983156	3
Insertion	Chr12	23534823	23534823	1
Insertion	Chr1	23783018	23783063	46	LOC_Os01g41950
Insertion	Chr2	18104962	18104995	34
Insertion	Chr3	4843595	4843596	2	LOC_Os03g09270
Insertion	Chr4	8691608	8691608	1
Insertion	Chr6	18664539	18664539	1
Insertion	Chr6	29271766	29271769	4
Insertion	Chr7	18777813	18777814	2
Insertion	Chr8	14868391	14868393	3
Insertion	Chr8	19736354	19736369	16	LOC_Os08g31830
Insertion	Chr9	4862250	4862250	1
Insertion	Chr9	4899924	4899951	28
Insertion	Chr9	7674949	7674949	1
Insertion	Chr10	7350568	7350570	3
Insertion	Chr10	18245566	18245566	1

Inversions: 8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	3239500	3239607
Inversion	Chr6	7614734	7614956
Inversion	Chr8	13685801	14590979	LOC_Os08g22760
Inversion	Chr10	14497443	15370663	LOC_Os10g29570
Inversion	Chr7	18168299	18168534	LOC_Os07g30700
Inversion	Chr4	20920101	20920258	LOC_Os04g34570
Inversion	Chr5	22860772	22860937	LOC_Os05g38980
Inversion	Chr3	27750804	27751028	LOC_Os03g48674

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	934572	Chr2	8156961
Translocation	Chr5	934595	Chr2	8155110
Translocation	Chr3	11749572	Chr2	12910763	LOC_Os02g21720
Translocation	Chr3	11749577	Chr2	12907814	LOC_Os02g21710
Translocation	Chr5	28804368	Chr4	28915591
Translocation	Chr4	29065623	Chr2	8155006

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