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Mutant Information

Mutant Name	FN1402-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1402-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) = High (Between 126% and 175%) 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: 42

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	9903164	C-T	HET	INTERGENIC
SBS	Chr1	22496312	C-T	HET	INTRON
SBS	Chr1	24954639	T-C	HOMO	INTERGENIC
SBS	Chr1	27863038	C-T	HET	INTERGENIC
SBS	Chr2	18786646	T-C	HET	INTERGENIC
SBS	Chr3	982835	C-T	HET	INTERGENIC
SBS	Chr3	3938180	T-C	HET	INTRON
SBS	Chr3	8105683	C-G	HET	INTERGENIC
SBS	Chr3	16340082	T-C	HET	INTERGENIC
SBS	Chr3	18824819	G-A	HET	INTERGENIC
SBS	Chr3	22975092	T-C	HET	INTERGENIC
SBS	Chr3	24989988	A-T	HET	INTERGENIC
SBS	Chr3	24991176	G-T	HET	INTERGENIC
SBS	Chr3	24991177	G-A	HET	INTERGENIC
SBS	Chr3	32364484	C-T	HOMO	INTERGENIC
SBS	Chr4	8469938	T-G	HOMO	INTRON
SBS	Chr4	26894590	G-A	HOMO	INTERGENIC
SBS	Chr5	5726055	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os05g10530
SBS	Chr5	17063136	T-C	HET	INTERGENIC
SBS	Chr5	20981201	C-A	HOMO	INTERGENIC
SBS	Chr6	10603725	C-T	HET	INTERGENIC
SBS	Chr6	12812975	A-T	HET	INTERGENIC
SBS	Chr6	23511530	T-C	HOMO	INTERGENIC
SBS	Chr6	25266108	G-T	HET	INTERGENIC
SBS	Chr7	12965102	A-C	HET	INTERGENIC
SBS	Chr7	13850780	C-T	HET	INTERGENIC
SBS	Chr8	1664773	C-T	HET	INTERGENIC
SBS	Chr8	12662237	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr8	18028522	T-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os08g29400
SBS	Chr8	18028523	G-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os08g29400
SBS	Chr9	2945844	G-A	HET	INTRON
SBS	Chr9	2945846	T-A	HET	INTRON
SBS	Chr9	16481139	G-A	HET	SYNONYMOUS_CODING
SBS	Chr10	17147353	T-C	HET	INTERGENIC
SBS	Chr10	18941317	C-T	HOMO	UTR_3_PRIME
SBS	Chr11	13860190	A-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g24330
SBS	Chr11	13933289	T-A	HOMO	INTERGENIC
SBS	Chr11	14196339	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr11	17312135	T-C	HET	INTERGENIC
SBS	Chr11	21215932	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os11g36090
SBS	Chr12	1898014	C-T	HOMO	INTRON
SBS	Chr12	10225568	C-T	HET	INTERGENIC

Deletions: 27

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	2394836	2394841	5
Deletion	Chr5	5207922	5207924	2
Deletion	Chr8	7594029	7594030	1	LOC_Os08g12820
Deletion	Chr11	9868919	9868941	22
Deletion	Chr12	12964045	12964057	12
Deletion	Chr10	13155438	13155440	2
Deletion	Chr11	13473262	13473280	18
Deletion	Chr3	14873255	14873259	4	LOC_Os03g25970
Deletion	Chr10	17944359	17944360	1
Deletion	Chr8	18029408	18617031	587623	81
Deletion	Chr10	18051150	18051151	1
Deletion	Chr8	18968182	18968214	32
Deletion	Chr7	20516001	20610000	94000	12
Deletion	Chr12	20728406	20728407	1
Deletion	Chr6	21890069	21890079	10
Deletion	Chr3	22170678	22170680	2
Deletion	Chr10	22443393	22443394	1
Deletion	Chr7	24393369	24393370	1	LOC_Os07g40700
Deletion	Chr3	24989477	24989502	25
Deletion	Chr1	25167399	25167401	2
Deletion	Chr6	25423022	25423030	8	LOC_Os06g42330
Deletion	Chr5	26447216	26447218	2	LOC_Os05g45630
Deletion	Chr1	28484416	28484446	30	LOC_Os01g49529
Deletion	Chr3	28601836	28601857	21	LOC_Os03g50150
Deletion	Chr6	29130188	29130190	2
Deletion	Chr1	33870874	33870887	13	LOC_Os01g58580
Deletion	Chr3	36203679	36203681	2

Insertions: 8

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	36411822	36411822	1
Insertion	Chr5	21974748	21974749	2
Insertion	Chr10	15621383	15621384	2	LOC_Os10g30080
Insertion	Chr1	23218418	23218418	1
Insertion	Chr4	5642535	5642535	1
Insertion	Chr6	29432069	29432070	2
Insertion	Chr11	2547058	2547058	1
Insertion	Chr11	4807214	4807215	2

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	2417257	3283954	2
Inversion	Chr8	3283962	27671534	2
Inversion	Chr8	17475762	18617008	LOC_Os08g28600
Inversion	Chr1	22498523	22538730	2
Inversion	Chr1	22498590	22538757	LOC_Os01g39890

No Translocation

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr10	17884836	17885061	225

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