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Mutant Information

Mutant Name	FN242-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN242-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: 22

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr2	8141526	G-A	HOMO	INTRON
SBS	Chr2	11402820	A-G	HOMO	INTRON
SBS	Chr2	11403584	C-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os02g19510
SBS	Chr2	19433089	T-C	HET	INTERGENIC
SBS	Chr2	33766950	T-C	HOMO	INTERGENIC
SBS	Chr3	2083930	G-C	HET	INTERGENIC
SBS	Chr4	6067787	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g11160
SBS	Chr4	7451372	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g13390
SBS	Chr4	13844301	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g24190
SBS	Chr4	13844302	G-T	HOMO	SYNONYMOUS_CODING
SBS	Chr4	22739386	C-T	HET	INTERGENIC
SBS	Chr5	3579783	C-T	HOMO	INTERGENIC
SBS	Chr5	9736845	G-C	HET	INTRON
SBS	Chr7	1914112	A-G	HOMO	UTR_3_PRIME
SBS	Chr7	11347787	G-T	HET	INTERGENIC
SBS	Chr7	14036000	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os07g24670
SBS	Chr10	1496067	A-G	HET	INTERGENIC
SBS	Chr10	2484291	G-A	HOMO	INTRON
SBS	Chr11	17833607	G-T	HET	INTERGENIC
SBS	Chr12	1795074	G-A	HET	UTR_3_PRIME
SBS	Chr12	14980045	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g25830
SBS	Chr12	22228950	A-G	HET	INTERGENIC

Deletions: 23

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	1518467	1518483	16
Deletion	Chr8	2112794	2112796	2
Deletion	Chr8	2244806	2244825	19
Deletion	Chr1	5569484	5569487	3
Deletion	Chr1	7799154	7799164	10
Deletion	Chr1	7815564	7815565	1
Deletion	Chr6	9872543	9872605	62
Deletion	Chr8	9943074	9945617	2543	LOC_Os08g16290
Deletion	Chr2	11412848	11424367	11519	2
Deletion	Chr5	11689001	12094000	405000	60
Deletion	Chr6	12675751	12675754	3
Deletion	Chr5	13112363	13112365	2
Deletion	Chr12	14772472	14772473	1
Deletion	Chr1	16529346	16529352	6	LOC_Os01g29488
Deletion	Chr4	19759991	19760494	503
Deletion	Chr12	19792011	19792029	18
Deletion	Chr4	21029001	21074000	45000	4
Deletion	Chr7	21844642	21844643	1
Deletion	Chr12	23785346	23785347	1
Deletion	Chr12	25184923	25184934	11	LOC_Os12g40680
Deletion	Chr4	26575001	26660000	85000	17
Deletion	Chr2	31208332	31208338	6
Deletion	Chr1	42150424	42150432	8

No Insertion

Inversions: 6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	7568771	9230699	LOC_Os08g12780
Inversion	Chr8	8297661	9230707	LOC_Os08g13880
Inversion	Chr12	17641982	17685018	LOC_Os12g29660
Inversion	Chr12	17641994	17685021	LOC_Os12g29660
Inversion	Chr7	24665402	25778177	2
Inversion	Chr12	26145427	26442173

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	8294523	Chr3	20721984	2
Translocation	Chr5	11687537	Chr2	2127960	2
Translocation	Chr5	11689675	Chr2	2127976	LOC_Os02g04700

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