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Mutant Information

Mutant Name	FN1120-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1120-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Very Low (Below 24%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 31

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	23876110	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr1	24058409	C-T	HET	INTERGENIC
SBS	Chr1	299261	C-A	HET	INTERGENIC
SBS	Chr1	32619461	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os01g56580
SBS	Chr1	42624325	A-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g73570
SBS	Chr10	10730043	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os10g21110
SBS	Chr10	12529151	T-C	HET	INTERGENIC
SBS	Chr10	15878113	C-T	HET	SYNONYMOUS_CODING
SBS	Chr10	16572970	A-C	HET	INTERGENIC
SBS	Chr10	17289514	C-T	HET	INTERGENIC
SBS	Chr10	17289515	A-T	HET	INTERGENIC
SBS	Chr10	6486105	A-G	HET	INTRON
SBS	Chr11	136679	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g01240
SBS	Chr11	22270287	G-T	HET	INTRON
SBS	Chr11	994521	T-C	HOMO	INTERGENIC
SBS	Chr12	1359054	C-T	HET	INTERGENIC
SBS	Chr12	14706664	G-C	HET	INTERGENIC
SBS	Chr12	23241046	A-T	HET	INTERGENIC
SBS	Chr12	233988	T-A	HET	INTERGENIC
SBS	Chr12	23688094	A-T	HET	INTRON
SBS	Chr2	12476093	C-T	HOMO	INTERGENIC
SBS	Chr2	5094741	G-A	HET	INTERGENIC
SBS	Chr3	17944944	C-T	HET	INTERGENIC
SBS	Chr3	2127207	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g04560
SBS	Chr4	18907767	A-G	HET	INTERGENIC
SBS	Chr5	11252672	A-T	HET	INTERGENIC
SBS	Chr5	17126557	C-T	HOMO	INTERGENIC
SBS	Chr7	15528251	G-A	HET	SYNONYMOUS_CODING
SBS	Chr7	19687328	C-T	HET	INTERGENIC
SBS	Chr7	9642688	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os07g16460
SBS	Chr8	18548874	A-T	HET	INTERGENIC

Deletions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	233044	233049	5
Deletion	Chr1	3459170	3462072	2902	LOC_Os01g07330
Deletion	Chr1	4269474	4378218	108744	19
Deletion	Chr12	4291142	4291145	3	LOC_Os12g08440
Deletion	Chr10	4791992	4791993	1	LOC_Os10g08850
Deletion	Chr11	9572473	9572474	1
Deletion	Chr8	15100001	15189000	89000	9
Deletion	Chr7	18992126	18992130	4
Deletion	Chr9	20382867	20382868	1
Deletion	Chr7	22296173	22296179	6
Deletion	Chr6	27134094	27134095	1
Deletion	Chr1	42414107	42414112	5

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	4915293	4915294	2
Insertion	Chr10	2189216	2189217	2
Insertion	Chr5	20090488	20090489	2
Insertion	Chr6	25426205	25426206	2

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	7220507	7281374	2
Inversion	Chr10	7220529	7281378	2

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	15569340	Chr8	721636	LOC_Os08g02150
Translocation	Chr9	15580174	Chr8	721611	2
Translocation	Chr8	15961269	Chr2	34707376
Translocation	Chr8	15961508	Chr2	34707357
Translocation	Chr12	22640898	Chr8	15100380

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