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Mutant Information

Mutant Name	FN1237-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1237-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) 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: 37

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15160551	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os01g27190
SBS	Chr1	21745466	C-G	HET	INTERGENIC
SBS	Chr1	29002398	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g50500
SBS	Chr2	1210721	T-A	HET	INTRON
SBS	Chr2	1210724	T-A	HET	INTRON
SBS	Chr2	1210726	T-A	HET	INTRON
SBS	Chr2	12220737	T-C	HET	INTERGENIC
SBS	Chr2	20015412	C-A	HOMO	INTERGENIC
SBS	Chr2	27613581	T-C	HET	INTRON
SBS	Chr2	28547995	A-T	HET	INTRON
SBS	Chr2	30628596	A-G	HET	INTERGENIC
SBS	Chr2	35473470	C-T	HET	INTERGENIC
SBS	Chr3	17544340	C-A	HET	INTERGENIC
SBS	Chr4	15383769	G-A	HOMO	INTERGENIC
SBS	Chr4	21803671	G-A	HET	INTERGENIC
SBS	Chr4	26797463	T-A	HET	INTERGENIC
SBS	Chr4	27920078	A-T	HOMO	INTRON
SBS	Chr5	11760550	A-G	HOMO	INTERGENIC
SBS	Chr6	13754236	A-C	HOMO	INTERGENIC
SBS	Chr6	26894130	C-T	HOMO	INTERGENIC
SBS	Chr6	27456796	G-C	HOMO	INTERGENIC
SBS	Chr7	5689392	A-G	HET	INTERGENIC
SBS	Chr7	5689395	A-T	HET	INTERGENIC
SBS	Chr7	9891682	C-T	HET	INTERGENIC
SBS	Chr7	26171295	C-A	HET	INTRON
SBS	Chr8	6546970	C-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os08g11130
SBS	Chr8	17378774	C-T	HOMO	INTERGENIC
SBS	Chr8	22579590	A-T	HET	SYNONYMOUS_CODING
SBS	Chr8	26134625	C-T	HET	SYNONYMOUS_CODING
SBS	Chr9	1482076	C-T	HET	INTRON
SBS	Chr9	17071614	T-C	HOMO	INTERGENIC
SBS	Chr10	486389	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g01750
SBS	Chr10	1294112	A-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os10g03080
SBS	Chr10	6253673	C-T	HOMO	INTRON
SBS	Chr10	21934193	C-T	HET	INTERGENIC
SBS	Chr12	16567305	A-T	HET	INTERGENIC
SBS	Chr12	19945007	C-T	HET	INTRON

Deletions: 34

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	157587	157589	2
Deletion	Chr8	923684	923685	1
Deletion	Chr7	3639960	3639961	1
Deletion	Chr9	3886913	3886915	2
Deletion	Chr9	4600385	4600386	1
Deletion	Chr10	7004504	7004510	6	LOC_Os10g12570
Deletion	Chr10	7004508	7004514	6	LOC_Os10g12570
Deletion	Chr7	7068746	7068751	5
Deletion	Chr11	7937001	8414000	477000	75
Deletion	Chr11	8419001	8598000	179000	28
Deletion	Chr11	9566368	9566369	1
Deletion	Chr10	10159437	10159438	1
Deletion	Chr11	13560049	13560055	6	LOC_Os11g23930
Deletion	Chr11	14574914	14574916	2
Deletion	Chr12	14594224	14594226	2	LOC_Os12g25320
Deletion	Chr6	14692310	14692364	54
Deletion	Chr11	15238688	15238699	11	LOC_Os11g26594
Deletion	Chr1	15268508	15268515	7
Deletion	Chr6	16170739	16186280	15541	3
Deletion	Chr2	16618602	16618618	16	LOC_Os02g28074
Deletion	Chr11	16800946	16800969	23
Deletion	Chr8	17180333	17180334	1
Deletion	Chr11	17813258	17813264	6
Deletion	Chr4	18488361	18488364	3
Deletion	Chr4	19781130	19781131	1
Deletion	Chr1	20373142	20373184	42
Deletion	Chr9	20448391	20448393	2
Deletion	Chr11	20881666	20881678	12
Deletion	Chr6	23340890	23350765	9875	LOC_Os06g39344
Deletion	Chr4	25871348	25871349	1
Deletion	Chr3	27595635	27595637	2
Deletion	Chr1	27743170	27743171	1	LOC_Os01g48410
Deletion	Chr6	29381433	29381435	2	LOC_Os06g48560
Deletion	Chr4	35403860	35403865	5

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr3	36401809	36401810	2
Insertion	Chr5	5284988	5284989	2
Insertion	Chr12	17835352	17835355	4
Insertion	Chr3	32575446	32575446	1
Insertion	Chr7	11792515	11792516	2

Inversions: 9

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	217627	491215	LOC_Os10g01360
Inversion	Chr10	217648	491219	LOC_Os10g01360
Inversion	Chr9	4679544	4679811
Inversion	Chr11	7023907	7937325
Inversion	Chr7	18014460	18024459	LOC_Os07g30430
Inversion	Chr1	20499424	20719375	2
Inversion	Chr1	20499442	20719376	2
Inversion	Chr10	21406807	21675531
Inversion	Chr9	21410464	21985106	LOC_Os09g37120

No Translocation

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