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Mutant Information

Mutant Name	W423-5-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W423-5-1 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: 32

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15821009	A-T	HET	INTERGENIC
SBS	Chr1	28239815	T-G	HET	INTERGENIC
SBS	Chr1	3191504	C-T	HOMO	INTERGENIC
SBS	Chr1	3191505	C-T	HOMO	INTERGENIC
SBS	Chr10	21601025	G-A	HET	INTERGENIC
SBS	Chr10	3603423	T-C	HOMO	INTERGENIC
SBS	Chr10	770230	C-T	HOMO	INTERGENIC
SBS	Chr11	24338477	G-A	HOMO	INTERGENIC
SBS	Chr12	13026237	T-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g23040
SBS	Chr12	18439224	T-C	HET	SYNONYMOUS_CODING
SBS	Chr12	20279227	A-G	HET	INTERGENIC
SBS	Chr2	1962463	A-G	HET	INTRON
SBS	Chr2	8692416	A-C	HOMO	INTERGENIC
SBS	Chr3	11450939	C-A	HET	INTERGENIC
SBS	Chr3	18013777	G-A	HOMO	INTERGENIC
SBS	Chr3	23006070	T-C	HOMO	INTERGENIC
SBS	Chr3	3891839	A-G	HET	INTERGENIC
SBS	Chr3	7973906	C-A	HET	INTERGENIC
SBS	Chr4	17054331	A-T	HET	INTERGENIC
SBS	Chr4	17676636	G-A	HOMO	INTERGENIC
SBS	Chr5	11018639	C-A	HET	INTERGENIC
SBS	Chr5	13872351	T-A	HET	INTERGENIC
SBS	Chr5	26962197	G-A	HET	INTERGENIC
SBS	Chr5	4627738	G-A	HET	SYNONYMOUS_CODING
SBS	Chr5	4847597	C-T	HET	INTERGENIC
SBS	Chr5	8247051	T-A	HET	INTRON
SBS	Chr5	8354855	C-G	HET	INTERGENIC
SBS	Chr6	10443736	C-T	HET	INTERGENIC
SBS	Chr6	24396629	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g40930
SBS	Chr7	29222337	T-C	HET	INTERGENIC
SBS	Chr8	2278886	T-C	HOMO	INTERGENIC
SBS	Chr9	16600390	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g27300

Deletions: 25

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	1564742	1564744	2	LOC_Os01g03740
Deletion	Chr3	5183272	5183346	74
Deletion	Chr3	5472881	5472886	5
Deletion	Chr3	7951797	7951801	4
Deletion	Chr5	8155001	8247000	92000	9
Deletion	Chr5	8370907	8370912	5
Deletion	Chr9	8420136	8420137	1
Deletion	Chr12	8739246	8739251	5
Deletion	Chr8	8920338	8920354	16
Deletion	Chr5	8934001	9112000	178000	28
Deletion	Chr3	9698146	9698148	2
Deletion	Chr5	10310001	10352000	42000	8
Deletion	Chr10	11081467	11081472	5
Deletion	Chr6	12328336	12328338	2
Deletion	Chr12	13184718	13184725	7
Deletion	Chr4	14229807	14229809	2
Deletion	Chr10	15684246	15684250	4	LOC_Os10g30170
Deletion	Chr10	16899083	16899085	2
Deletion	Chr10	17673113	17673115	2
Deletion	Chr2	17755097	17755098	1
Deletion	Chr7	24701433	24701434	1
Deletion	Chr6	26781856	26781858	2
Deletion	Chr3	27033715	27041247	7532
Deletion	Chr6	27085904	27085905	1
Deletion	Chr1	29838836	29838840	4

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	2743564	2743566	3
Insertion	Chr5	4809099	4809101	3
Insertion	Chr6	19413111	19413112	2

Inversions: 7

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	1458192	2237759
Inversion	Chr10	1458211	2240769	LOC_Os10g04690
Inversion	Chr5	8155064	13511514
Inversion	Chr5	8246819	13511517	LOC_Os05g14540
Inversion	Chr12	18081479	18083626
Inversion	Chr12	18081492	18083631
Inversion	Chr2	27440261	27748536

Translocations: 7

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	2237774	Chr5	10309838	LOC_Os05g17930
Translocation	Chr10	2240749	Chr4	2491099	LOC_Os10g04690
Translocation	Chr12	3653300	Chr9	6641917
Translocation	Chr11	15322806	Chr2	27748529
Translocation	Chr11	15353170	Chr3	22530088
Translocation	Chr10	21106398	Chr4	14889178	LOC_Os10g39510
Translocation	Chr3	22531418	Chr2	27440253

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