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Mutant Information

Mutant Name	W416-6-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W416-6-1 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: 33

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3006131	G-A	HOMO	INTERGENIC
SBS	Chr1	32558584	T-A	HOMO	SYNONYMOUS_CODING
SBS	Chr1	36495327	C-A	HOMO	INTERGENIC
SBS	Chr2	499053	G-A	HET	SYNONYMOUS_CODING
SBS	Chr2	9615983	C-T	HOMO	INTERGENIC
SBS	Chr2	17366636	G-A	HET	INTERGENIC
SBS	Chr2	32357475	A-T	HET	INTERGENIC
SBS	Chr3	13946496	T-A	HET	INTRON
SBS	Chr4	6808338	G-A	HET	SYNONYMOUS_CODING
SBS	Chr4	9333626	C-T	HOMO	INTERGENIC
SBS	Chr4	16305021	G-C	HET	INTERGENIC
SBS	Chr5	26915392	G-A	HET	INTRON
SBS	Chr5	26915393	C-A	HET	INTRON
SBS	Chr6	6540073	G-A	HET	INTERGENIC
SBS	Chr6	10613504	C-A	HET	STOP_GAINED	LOC_Os06g18720
SBS	Chr6	29185730	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os06g48250
SBS	Chr7	12280376	G-C	HET	INTERGENIC
SBS	Chr7	19346811	G-A	HET	INTERGENIC
SBS	Chr7	19565607	T-C	HET	INTERGENIC
SBS	Chr8	2598617	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os08g05060
SBS	Chr8	3804896	G-A	HOMO	INTERGENIC
SBS	Chr8	13339635	C-T	HET	INTERGENIC
SBS	Chr8	14169544	A-C	HOMO	INTRON
SBS	Chr8	14260305	A-G	HOMO	INTERGENIC
SBS	Chr8	17790254	A-T	HOMO	INTERGENIC
SBS	Chr9	942413	G-T	HET	INTERGENIC
SBS	Chr9	3372229	T-A	HOMO	INTRON
SBS	Chr9	3552901	A-G	HOMO	INTERGENIC
SBS	Chr9	14109182	A-C	HET	INTERGENIC
SBS	Chr10	4365852	T-C	HET	INTERGENIC
SBS	Chr10	14809293	G-A	HOMO	INTRON
SBS	Chr12	1071274	G-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g02910
SBS	Chr12	13770769	G-C	HET	INTRON

Deletions: 17

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	114708	114716	8
Deletion	Chr12	699194	699196	2	LOC_Os12g02250
Deletion	Chr3	5514882	5514890	8
Deletion	Chr11	9325481	9325495	14
Deletion	Chr7	10610001	10683000	73000	12
Deletion	Chr7	10689001	10851000	162000	25
Deletion	Chr3	14969056	14969057	1
Deletion	Chr5	15454201	15454202	1	LOC_Os05g26600
Deletion	Chr6	15857762	15857763	1	LOC_Os06g27950
Deletion	Chr8	17506221	17506230	9	LOC_Os08g28660
Deletion	Chr8	17562929	17562956	27
Deletion	Chr9	18785022	18785023	1	LOC_Os09g31230
Deletion	Chr10	18899571	18899572	1
Deletion	Chr7	22946129	22946131	2
Deletion	Chr4	29200361	29200364	3
Deletion	Chr6	29693774	29693781	7
Deletion	Chr1	42870751	42870762	11	LOC_Os01g74010

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr8	16317113	16317114	2
Insertion	Chr3	14304790	14304790	1
Insertion	Chr6	9084731	9084731	1

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	6457654	7253366	LOC_Os07g11670

No Translocation

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