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Mutant Information

Mutant Name	W22-2-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W22-2-1 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: 27

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	9844699	G-T	HOMO	INTERGENIC
SBS	Chr1	22052287	C-T	HET	INTERGENIC
SBS	Chr1	39084270	T-C	HOMO	INTERGENIC
SBS	Chr2	3941238	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g07620
SBS	Chr2	4212093	T-C	HET	INTERGENIC
SBS	Chr2	4762589	C-T	HET	INTERGENIC
SBS	Chr2	12301691	G-C	HET	INTERGENIC
SBS	Chr2	16060029	G-A	HET	INTERGENIC
SBS	Chr2	27345152	C-T	HET	INTERGENIC
SBS	Chr3	12142104	A-C	HET	INTERGENIC
SBS	Chr3	30623440	G-A	HOMO	INTERGENIC
SBS	Chr4	24696220	T-C	HOMO	INTERGENIC
SBS	Chr4	30891589	A-G	HET	INTRON
SBS	Chr5	6663065	T-C	HOMO	INTERGENIC
SBS	Chr7	1124243	A-C	HOMO	INTERGENIC
SBS	Chr8	5844023	G-A	HOMO	INTERGENIC
SBS	Chr9	4785365	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g09000
SBS	Chr9	20092124	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g34050
SBS	Chr9	22187039	T-A	HET	INTERGENIC
SBS	Chr10	12449052	G-A	HOMO	INTERGENIC
SBS	Chr10	13416694	G-C	HET	SYNONYMOUS_CODING
SBS	Chr11	9300851	T-C	HOMO	SYNONYMOUS_CODING
SBS	Chr11	9355144	C-T	HET	INTERGENIC
SBS	Chr11	15003291	G-T	HOMO	INTERGENIC
SBS	Chr11	28736760	G-A	HET	SYNONYMOUS_CODING
SBS	Chr12	17467288	C-G	HET	INTERGENIC
SBS	Chr12	19964313	G-A	HOMO	INTERGENIC

Deletions: 11

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	2804634	2804635	1
Deletion	Chr4	3578723	3578733	10
Deletion	Chr2	6135178	6135184	6
Deletion	Chr5	8242062	8242079	17
Deletion	Chr7	11753981	11753996	15
Deletion	Chr1	14385721	14385724	3	LOC_Os01g25430
Deletion	Chr9	16478052	16478054	2
Deletion	Chr4	18312885	18312887	2
Deletion	Chr9	18758366	18758367	1
Deletion	Chr7	21173765	21173786	21
Deletion	Chr8	27290258	27290268	10

Insertions: 8

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr9	10128415	10128416	2
Insertion	Chr12	25556821	25556828	8
Insertion	Chr2	18453732	18453739	8
Insertion	Chr3	10202816	10202821	6
Insertion	Chr2	30049784	30049787	4
Insertion	Chr5	21765747	21765750	4
Insertion	Chr8	11478813	11478813	1
Insertion	Chr8	15507494	15507494	1

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	17540916	19859653	LOC_Os06g30370

No Translocation

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