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Mutant Information

Mutant Name	W427-1-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W427-1-1 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: 20

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	38539638	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g66350
SBS	Chr1	41155301	C-G	HOMO	INTERGENIC
SBS	Chr1	5474462	A-G	HET	INTERGENIC
SBS	Chr10	2904325	G-A	HET	INTERGENIC
SBS	Chr11	2618712	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g05710
SBS	Chr12	20982105	C-T	HOMO	INTERGENIC
SBS	Chr3	1587942	A-C	HET	INTRON
SBS	Chr3	24276077	T-G	HOMO	INTRON
SBS	Chr3	31480518	C-T	HET	SYNONYMOUS_CODING
SBS	Chr3	31790017	T-A	HET	INTERGENIC
SBS	Chr3	622883	A-G	HET	INTRON
SBS	Chr4	493040	T-C	HET	INTRON
SBS	Chr5	20606006	A-C	HET	INTERGENIC
SBS	Chr5	3164966	C-T	HOMO	INTERGENIC
SBS	Chr5	5285562	C-G	HOMO	INTERGENIC
SBS	Chr8	22724850	T-A	HET	INTERGENIC
SBS	Chr8	4408446	A-G	HET	INTRON
SBS	Chr8	8049933	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os08g13540
SBS	Chr8	9652901	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g15870
SBS	Chr9	18030948	T-A	HET	INTERGENIC

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	533034	533041	7
Deletion	Chr10	8975245	8975246	1
Deletion	Chr2	9073779	9073787	8
Deletion	Chr10	12282596	12282608	12
Deletion	Chr3	12685041	12685042	1
Deletion	Chr10	15339770	15339777	7
Deletion	Chr4	16129989	16154412	24423	5
Deletion	Chr7	16270766	16270767	1
Deletion	Chr11	16323617	16323618	1
Deletion	Chr1	16587074	16587079	5
Deletion	Chr4	16782837	16782838	1
Deletion	Chr5	20994678	20994679	1
Deletion	Chr6	24232223	24232233	10
Deletion	Chr1	25758110	25758112	2	LOC_Os01g45380
Deletion	Chr4	29372569	29372570	1
Deletion	Chr1	30934944	30934953	9
Deletion	Chr2	31540323	31540326	3
Deletion	Chr3	33921147	33921149	2
Deletion	Chr1	42697290	42697342	52

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	31479258	31479259	2
Insertion	Chr11	22202276	22202277	2
Insertion	Chr11	24117141	24117141	1
Insertion	Chr5	18375553	18375554	2
Insertion	Chr6	6811570	6811571	2
Insertion	Chr7	12108498	12108500	3

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	25130893	25529839
Inversion	Chr5	25210714	25529837	LOC_Os05g43350
Inversion	Chr4	29779593	29833124	LOC_Os04g49930

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	26825845	Chr4	31474299
Translocation	Chr8	26826558	Chr4	31474295

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