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Mutant Information

Mutant Name	FN690-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN690-S 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: 29

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	22306144	G-A	HOMO	INTRON
SBS	Chr1	23263213	G-T	HOMO	SYNONYMOUS_CODING
SBS	Chr1	24183453	C-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g42520
SBS	Chr1	41205553	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os01g71220
SBS	Chr1	4998519	A-G	HET	INTERGENIC
SBS	Chr1	5001710	G-C	HET	INTERGENIC
SBS	Chr1	6943553	A-T	HET	INTERGENIC
SBS	Chr1	8170102	T-C	HET	INTERGENIC
SBS	Chr10	6024009	C-A	HET	INTERGENIC
SBS	Chr11	26497752	G-A	HET	INTERGENIC
SBS	Chr11	5875030	C-T	HOMO	UTR_3_PRIME
SBS	Chr12	20799558	C-T	HOMO	INTERGENIC
SBS	Chr12	4394032	A-T	HET	INTERGENIC
SBS	Chr12	4974063	C-T	HET	INTRON
SBS	Chr12	8314321	T-A	HET	INTERGENIC
SBS	Chr2	1128356	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr3	26182210	G-A	HOMO	INTERGENIC
SBS	Chr3	30907324	T-C	HOMO	INTERGENIC
SBS	Chr4	1254433	C-A	HOMO	INTRON
SBS	Chr4	29138465	A-T	HOMO	INTERGENIC
SBS	Chr4	31903394	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g53540
SBS	Chr4	8757267	T-A	HET	INTERGENIC
SBS	Chr5	22289725	G-C	HET	INTERGENIC
SBS	Chr5	5639031	T-C	HET	INTRON
SBS	Chr6	13221963	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g22730
SBS	Chr8	16447489	G-A	HET	INTERGENIC
SBS	Chr8	17577783	C-T	HOMO	INTERGENIC
SBS	Chr9	5367657	G-A	HET	INTERGENIC
SBS	Chr9	6814098	G-C	HET	INTERGENIC

Deletions: 20

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr7	209737	209780	43
Deletion	Chr4	4805200	4805203	3
Deletion	Chr9	5139397	5139398	1
Deletion	Chr5	5368248	5368252	4
Deletion	Chr2	5965171	5965172	1
Deletion	Chr2	5978035	5978042	7
Deletion	Chr2	6026046	6026050	4
Deletion	Chr4	6225950	6225961	11	LOC_Os04g11390
Deletion	Chr10	11571643	11571644	1	LOC_Os10g22370
Deletion	Chr2	11784614	11784615	1	LOC_Os02g20010
Deletion	Chr12	12844794	12844797	3
Deletion	Chr10	13390357	13390362	5
Deletion	Chr7	14667864	14667882	18
Deletion	Chr2	21542456	21627121	84665	14
Deletion	Chr12	21788624	21788626	2
Deletion	Chr2	24494214	24494236	22	LOC_Os02g40430
Deletion	Chr3	26234180	26234181	1
Deletion	Chr3	26742567	26742569	2
Deletion	Chr11	28177754	28177776	22
Deletion	Chr1	31257061	31257074	13

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr3	12367866	12367868	3
Insertion	Chr4	27670046	27670050	5
Insertion	Chr8	15195584	15195595	12

No Inversion

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	3097227	Chr5	5079458
Translocation	Chr9	10385681	Chr7	15262552
Translocation	Chr7	14475395	Chr3	22581365	LOC_Os07g25340
Translocation	Chr7	14481712	Chr3	22581340
Translocation	Chr2	15723259	Chr1	9625506	LOC_Os02g26780
Translocation	Chr3	25354096	Chr1	27882664

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr5	5079591	5199634	120043

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