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Mutant Information

Mutant Name	FN580-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN580-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 26

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1709705	C-G	HOMO	INTERGENIC
SBS	Chr1	21888604	G-A	HET	INTERGENIC
SBS	Chr10	18608530	C-A	HET	INTRON
SBS	Chr11	11572842	C-A	HET	INTERGENIC
SBS	Chr11	1927259	T-C	HET	INTERGENIC
SBS	Chr12	1782779	A-G	HET	INTERGENIC
SBS	Chr4	18812869	T-C	HET	INTERGENIC
SBS	Chr4	2139362	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os04g04490
SBS	Chr4	26846117	G-C	HET	INTRON
SBS	Chr4	30924982	C-T	HET	INTRON
SBS	Chr5	11706458	C-G	HET	INTERGENIC
SBS	Chr5	12642884	G-A	HET	SPLICE_SITE_REGION
SBS	Chr5	20228144	T-A	HET	INTRON
SBS	Chr6	14541532	T-A	HET	INTERGENIC
SBS	Chr6	24809055	T-A	HOMO	UTR_3_PRIME
SBS	Chr6	30306920	T-C	HET	SYNONYMOUS_CODING
SBS	Chr6	7427888	T-G	HET	INTERGENIC
SBS	Chr7	27060273	G-A	HET	SYNONYMOUS_CODING
SBS	Chr7	28594714	T-C	HET	INTERGENIC
SBS	Chr8	24203462	C-T	HOMO	INTERGENIC
SBS	Chr8	24236659	C-T	HOMO	INTERGENIC
SBS	Chr8	26240314	C-A	HOMO	INTERGENIC
SBS	Chr8	4126063	T-C	HOMO	INTERGENIC
SBS	Chr8	4473066	G-A	HOMO	INTERGENIC
SBS	Chr8	6753164	C-G	HET	INTERGENIC
SBS	Chr9	1440682	G-T	HET	INTERGENIC

Deletions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	74582	74596	14
Deletion	Chr8	734098	734100	2	LOC_Os08g02160
Deletion	Chr3	944811	944831	20	LOC_Os03g02550
Deletion	Chr1	1129030	1129037	7
Deletion	Chr11	1931086	1931104	18
Deletion	Chr4	2263043	2263051	8	LOC_Os04g04710
Deletion	Chr5	4150821	4150822	1
Deletion	Chr8	4997487	4997493	6
Deletion	Chr6	5926468	5926469	1
Deletion	Chr8	5961524	5961526	2
Deletion	Chr6	6555719	6555720	1
Deletion	Chr9	10834018	10834037	19	LOC_Os09g17720
Deletion	Chr8	14209677	14209679	2
Deletion	Chr6	17168888	17168900	12
Deletion	Chr9	21089827	21089831	4
Deletion	Chr7	21384984	21385133	149	LOC_Os07g35700
Deletion	Chr7	24689964	24689969	5
Deletion	Chr1	24691075	24691077	2
Deletion	Chr5	24744134	24744135	1
Deletion	Chr7	26039517	26071474	31957	4
Deletion	Chr12	26959133	26959149	16
Deletion	Chr2	30763396	30763400	4

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	19824972	19824989	18	LOC_Os01g35789
Insertion	Chr1	43059641	43059641	1
Insertion	Chr10	17646851	17646851	1	LOC_Os10g33490
Insertion	Chr3	17832414	17832420	7	LOC_Os03g31300
Insertion	Chr7	26267327	26267328	2

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	2573503	2712594
Inversion	Chr11	2573516	2712597

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	6675636	Chr5	19243486	LOC_Os11g12000

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