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Mutant Information

Mutant Name	W252-6-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W252-6-1 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	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: 29

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr2	15301592	G-A	HET	INTERGENIC
SBS	Chr2	30026343	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os02g49100
SBS	Chr3	576452	G-T	HET	INTRON
SBS	Chr3	7005580	A-G	HOMO	INTERGENIC
SBS	Chr4	6873386	G-A	HOMO	INTERGENIC
SBS	Chr4	6873388	C-A	HOMO	INTERGENIC
SBS	Chr4	16711835	G-A	HOMO	INTERGENIC
SBS	Chr4	28743767	C-A	HOMO	INTERGENIC
SBS	Chr5	198193	T-C	HET	INTRON
SBS	Chr5	2846432	T-G	HET	INTRON
SBS	Chr5	9044521	G-A	HET	INTERGENIC
SBS	Chr5	19980467	A-G	HET	INTERGENIC
SBS	Chr6	12945098	C-T	HET	SYNONYMOUS_CODING
SBS	Chr7	2096578	A-C	HOMO	INTERGENIC
SBS	Chr7	6368225	C-G	HOMO	INTERGENIC
SBS	Chr7	16911274	T-C	HOMO	INTERGENIC
SBS	Chr8	1981877	C-T	HET	INTERGENIC
SBS	Chr8	26200837	G-A	HOMO	INTRON
SBS	Chr9	7471360	T-C	HOMO	INTRON
SBS	Chr9	16400389	T-C	HOMO	SYNONYMOUS_CODING
SBS	Chr10	1982188	G-A	HOMO	INTRON
SBS	Chr10	5090691	C-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os10g09440
SBS	Chr10	12592165	C-T	HET	INTERGENIC
SBS	Chr11	4859491	T-A	HET	INTERGENIC
SBS	Chr11	8622870	C-T	HET	INTERGENIC
SBS	Chr11	15275729	A-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g26670
SBS	Chr12	19800443	G-A	HOMO	INTERGENIC
SBS	Chr12	24017560	G-A	HOMO	INTERGENIC
SBS	Chr12	27446979	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g44280

Deletions: 20

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	2727850	2727851	1
Deletion	Chr10	5001224	5008942	7718	3
Deletion	Chr4	7264632	7264645	13
Deletion	Chr2	7346897	7346904	7	LOC_Os02g13690
Deletion	Chr6	7751166	7753152	1986
Deletion	Chr8	9853010	9853014	4
Deletion	Chr2	10074660	10074661	1	LOC_Os02g17500
Deletion	Chr8	10970376	10970378	2
Deletion	Chr5	11018316	11018318	2
Deletion	Chr10	13600257	13600262	5
Deletion	Chr2	13856225	13856404	179
Deletion	Chr5	22333822	22333840	18
Deletion	Chr2	22338051	22338052	1
Deletion	Chr1	22460777	22460778	1
Deletion	Chr9	22517232	22517233	1
Deletion	Chr5	24839701	24839707	6
Deletion	Chr8	26200832	26200834	2
Deletion	Chr5	26356291	26356293	2
Deletion	Chr7	26902445	26902451	6	LOC_Os07g45074
Deletion	Chr1	32290163	32290169	6

Insertions: 13

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr4	25792899	25792900	2
Insertion	Chr10	2738516	2738531	16
Insertion	Chr10	1742093	1742096	4
Insertion	Chr2	19802174	19802177	4
Insertion	Chr1	40468997	40468999	3
Insertion	Chr2	29365387	29365389	3	LOC_Os02g47980
Insertion	Chr7	3643477	3643479	3
Insertion	Chr1	24802881	24802882	2
Insertion	Chr10	13596877	13596878	2
Insertion	Chr11	7254958	7254959	2
Insertion	Chr11	16764607	16764608	2
Insertion	Chr3	12114390	12114391	2
Insertion	Chr7	11319117	11319118	2

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	4439601	7592776	2
Inversion	Chr9	17053221	18085874	LOC_Os09g29750

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	5001224	Chr2	26678154	2
Translocation	Chr10	5008932	Chr2	24261027
Translocation	Chr10	21685536	Chr2	13856402
Translocation	Chr10	21685539	Chr2	13856239
Translocation	Chr7	26513494	Chr4	26648639	LOC_Os04g45040

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