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Mutant Information

Mutant Name	W502-3-4 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W502-3-4 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	12015879	C-T	HET	INTERGENIC
SBS	Chr2	30926017	C-A	HOMO	INTRON
SBS	Chr2	30926018	A-T	HOMO	INTRON
SBS	Chr3	21568163	T-A	HET	INTERGENIC
SBS	Chr3	25421026	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g45040
SBS	Chr4	327135	A-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g01480
SBS	Chr4	11644914	T-C	HOMO	INTERGENIC
SBS	Chr5	6605831	G-A	HET	INTERGENIC
SBS	Chr5	8607756	T-A	HOMO	INTRON
SBS	Chr5	19847970	C-T	HET	INTERGENIC
SBS	Chr6	20228488	C-T	HET	INTERGENIC
SBS	Chr6	29650711	G-T	HET	INTERGENIC
SBS	Chr7	4099749	C-T	HOMO	INTERGENIC
SBS	Chr7	7999062	G-A	HOMO	INTRON
SBS	Chr7	11898116	A-G	HOMO	INTERGENIC
SBS	Chr7	15821230	A-G	HET	SYNONYMOUS_CODING
SBS	Chr7	19460103	G-A	HOMO	INTERGENIC
SBS	Chr8	7684314	G-A	HOMO	INTRON
SBS	Chr8	19608966	C-T	HOMO	INTERGENIC
SBS	Chr8	25243942	A-T	HOMO	INTRON
SBS	Chr9	6392969	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g11470
SBS	Chr9	12925132	G-T	HOMO	INTERGENIC
SBS	Chr9	22536657	T-G	HOMO	UTR_5_PRIME
SBS	Chr10	3410399	A-G	HET	INTERGENIC
SBS	Chr11	5269702	C-G	HET	INTERGENIC
SBS	Chr12	15467998	T-A	HET	INTERGENIC
SBS	Chr12	26465380	T-C	HET	INTERGENIC

Deletions: 14

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	1478249	1501502	23253	3
Deletion	Chr5	2602544	2602553	9
Deletion	Chr4	7692153	7692156	3
Deletion	Chr8	10590331	10590335	4
Deletion	Chr11	11188134	11214707	26573	5
Deletion	Chr10	14695254	14695259	5
Deletion	Chr3	15697241	15697256	15
Deletion	Chr8	18200151	18200152	1
Deletion	Chr8	21327233	21327241	8
Deletion	Chr4	21634872	21634896	24
Deletion	Chr4	22748603	22764405	15802	4
Deletion	Chr3	25800644	25800645	1	LOC_Os03g45710
Deletion	Chr3	26197778	26197780	2
Deletion	Chr8	27481642	27481662	20

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	1946332	1946333	2
Insertion	Chr2	17572570	17572570	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	7511040	25778368
Inversion	Chr12	7515910	25778364

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	13723710	Chr6	1501494	LOC_Os06g03770
Translocation	Chr10	13723719	Chr6	1478252
Translocation	Chr11	27533880	Chr3	25695336
Translocation	Chr2	34562797	Chr1	37507183	LOC_Os02g56450
Translocation	Chr2	34873461	Chr1	37507186

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