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Mutant Information

Mutant Name	FN1650-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1650-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: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: 51

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3512294	A-G	HET	INTRON
SBS	Chr1	10092188	C-A	HET	SYNONYMOUS_CODING
SBS	Chr1	18736798	C-A	Homo	INTRON
SBS	Chr1	20143596	T-C	Homo	INTERGENIC
SBS	Chr1	26252860	T-C	HET	INTRON
SBS	Chr1	28470221	C-T	HET	INTRON
SBS	Chr1	29195750	G-A	HET	INTERGENIC
SBS	Chr2	27684006	T-C	HET	SYNONYMOUS_CODING
SBS	Chr2	28612817	A-G	HET	INTERGENIC
SBS	Chr2	30949176	C-T	HET	INTERGENIC
SBS	Chr2	35771204	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os02g58500
SBS	Chr2	35771205	A-G	HET	SYNONYMOUS_CODING
SBS	Chr3	12419285	G-T	Homo	INTERGENIC
SBS	Chr3	13559330	C-T	Homo	INTERGENIC
SBS	Chr3	17032675	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os03g29900
SBS	Chr3	19866781	A-T	HET	START_GAINED	LOC_Os03g35849
SBS	Chr3	23492601	C-G	Homo	UTR_5_PRIME
SBS	Chr3	27907261	G-A	HET	INTRON
SBS	Chr3	34227901	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g60180
SBS	Chr3	36371977	G-A	HET	INTERGENIC
SBS	Chr4	23765167	G-C	Homo	SYNONYMOUS_CODING
SBS	Chr4	30148952	T-A	HET	INTERGENIC
SBS	Chr5	1828370	C-T	HET	UTR_3_PRIME
SBS	Chr5	8121865	C-A	HET	INTERGENIC
SBS	Chr5	8121867	G-A	HET	INTERGENIC
SBS	Chr5	11210714	C-T	HET	INTERGENIC
SBS	Chr5	16735054	T-A	HET	INTERGENIC
SBS	Chr5	22900574	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os05g39040
SBS	Chr5	29687009	G-A	HET	INTERGENIC
SBS	Chr6	2546873	C-A	Homo	UTR_5_PRIME
SBS	Chr6	4437310	A-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os06g08850
SBS	Chr6	9910664	T-A	Homo	INTERGENIC
SBS	Chr7	3988063	A-T	HET	INTERGENIC
SBS	Chr7	8020454	G-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os07g14060
SBS	Chr7	15155308	G-A	Homo	INTERGENIC
SBS	Chr7	20923497	C-T	Homo	INTERGENIC
SBS	Chr8	2621877	C-A	HET	INTERGENIC
SBS	Chr8	13524985	T-G	HET	SYNONYMOUS_CODING
SBS	Chr8	20001320	C-T	HET	INTRON
SBS	Chr9	790815	G-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os09g02110
SBS	Chr9	4334476	G-A	HET	INTERGENIC
SBS	Chr9	7843117	G-A	HET	INTERGENIC
SBS	Chr9	10524645	G-A	HET	INTERGENIC
SBS	Chr9	13151096	G-A	HET	SYNONYMOUS_CODING
SBS	Chr10	5074124	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g09400
SBS	Chr10	8411526	G-T	HET	INTERGENIC
SBS	Chr10	11429651	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os10g22130
SBS	Chr11	4131781	C-T	Homo	INTERGENIC
SBS	Chr11	6919815	G-T	Homo	INTERGENIC
SBS	Chr11	7588458	T-C	Homo	INTERGENIC
SBS	Chr12	15708415	C-T	Homo	INTERGENIC

Deletions: 35

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	555817	555829	12	LOC_Os08g01900
Deletion	Chr11	2138983	2138990	7
Deletion	Chr11	2809592	2809623	31
Deletion	Chr5	3412152	3412157	5	LOC_Os05g06610
Deletion	Chr2	4869246	4869247	1	LOC_Os02g09480
Deletion	Chr6	4920979	4920982	3
Deletion	Chr8	5085662	5085665	3	LOC_Os08g08770
Deletion	Chr8	6428079	6428084	5	LOC_Os08g10900
Deletion	Chr10	7349824	7349834	10
Deletion	Chr5	10314538	10314539	1
Deletion	Chr8	11382016	11382017	1
Deletion	Chr11	12088883	12115598	26715
Deletion	Chr6	12654310	12654311	1
Deletion	Chr8	14237743	14237746	3	LOC_Os08g23510
Deletion	Chr2	14519816	14519824	8	LOC_Os02g25040
Deletion	Chr4	15111427	15111428	1
Deletion	Chr4	15582141	15582151	10
Deletion	Chr12	15711844	15711846	2	LOC_Os12g26820
Deletion	Chr4	15744792	15744802	10
Deletion	Chr2	16283558	16283569	11	LOC_Os02g27510
Deletion	Chr6	17319242	17319244	2
Deletion	Chr2	20510035	20510038	3
Deletion	Chr1	20813836	20813838	2	LOC_Os01g37270
Deletion	Chr8	20947546	20947557	11
Deletion	Chr10	21747312	21747313	1
Deletion	Chr4	24198643	24198652	9
Deletion	Chr12	24522921	24522926	5
Deletion	Chr6	25556332	25556334	2
Deletion	Chr11	25992001	26028000	36000	6
Deletion	Chr2	29515176	29515181	5
Deletion	Chr3	30293103	30293106	3	LOC_Os03g52830
Deletion	Chr2	33671974	33672020	46
Deletion	Chr3	35653844	35653847	3
Deletion	Chr1	40578244	40578247	3
Deletion	Chr1	42866990	42866993	3

Insertions: 10

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr2	18534196	18534197	2
Insertion	Chr2	33018962	33018963	2
Insertion	Chr3	365270	365270	1
Insertion	Chr3	20120884	20120885	2	LOC_Os03g36270
Insertion	Chr3	25693159	25693160	2
Insertion	Chr4	31713913	31713915	3
Insertion	Chr7	22131048	22131052	5
Insertion	Chr8	8336123	8336124	2
Insertion	Chr8	21320636	21320685	50
Insertion	Chr9	19514508	19514508	1

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	1919887	19701008

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	4961285	Chr7	3359558
Translocation	Chr11	5070069	Chr10	7556024
Translocation	Chr8	10991578	Chr3	15245749	2
Translocation	Chr11	13614688	Chr4	15843
Translocation	Chr6	13827061	Chr3	31363407
Translocation	Chr11	28452495	Chr4	22510681	LOC_Os11g47310

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