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Mutant Information

Mutant Name	FN1640-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1640-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: 37

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1861379	C-T	Homo	INTERGENIC
SBS	Chr1	2665738	C-A	Homo	INTRON
SBS	Chr1	7142026	G-A	HET	INTERGENIC
SBS	Chr1	7659033	C-T	HET	INTERGENIC
SBS	Chr1	34579994	C-T	Homo	INTERGENIC
SBS	Chr2	1929448	A-G	Homo	UTR_3_PRIME
SBS	Chr2	8897338	A-T	HET	INTERGENIC
SBS	Chr2	21484120	T-A	HET	INTERGENIC
SBS	Chr3	16476430	G-T	HET	INTERGENIC
SBS	Chr3	33382960	C-T	Homo	INTERGENIC
SBS	Chr4	2186814	G-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os04g04574
SBS	Chr4	21942391	T-C	HET	INTRON
SBS	Chr4	27673401	C-T	HET	INTERGENIC
SBS	Chr5	12300944	G-A	HET	INTERGENIC
SBS	Chr6	2421030	C-T	HET	UTR_3_PRIME
SBS	Chr6	14631535	G-A	Homo	INTERGENIC
SBS	Chr7	11930655	T-A	HET	INTERGENIC
SBS	Chr7	21512454	G-A	HET	INTERGENIC
SBS	Chr7	23810125	A-G	HET	INTRON
SBS	Chr8	6898805	A-T	Homo	INTERGENIC
SBS	Chr8	9145625	A-C	HET	INTERGENIC
SBS	Chr8	24464169	G-A	HET	INTERGENIC
SBS	Chr9	17833544	G-T	HET	UTR_3_PRIME
SBS	Chr9	17833545	G-T	HET	UTR_3_PRIME
SBS	Chr9	19002045	A-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os09g31494
SBS	Chr9	21043684	G-T	HET	INTERGENIC
SBS	Chr10	18819670	T-A	HET	UTR_3_PRIME
SBS	Chr10	18819671	C-A	HET	UTR_3_PRIME
SBS	Chr11	2581389	T-G	HET	INTERGENIC
SBS	Chr11	3442033	T-C	HET	INTERGENIC
SBS	Chr11	7587452	G-A	HET	START_GAINED	LOC_Os11g13800
SBS	Chr11	12653149	C-A	HET	INTRON
SBS	Chr11	13504532	T-C	HET	INTERGENIC
SBS	Chr11	13504537	T-G	HET	INTERGENIC
SBS	Chr11	15180057	G-A	HET	INTERGENIC
SBS	Chr12	1565692	G-A	HET	INTRON
SBS	Chr12	21711914	G-A	HET	INTRON

Deletions: 37

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	1785927	1785928	1
Deletion	Chr6	4392382	4392387	5
Deletion	Chr10	4677681	4677682	1
Deletion	Chr8	7071088	7071101	13
Deletion	Chr4	8359870	8359877	7
Deletion	Chr1	8786598	8786600	2	LOC_Os01g15630
Deletion	Chr7	12584989	12584998	9	LOC_Os07g22410
Deletion	Chr7	13010824	13010825	1
Deletion	Chr2	13931491	13931502	11
Deletion	Chr2	14617772	14617778	6
Deletion	Chr7	15379806	15379807	1
Deletion	Chr8	15895001	16331000	436000	68
Deletion	Chr8	16115541	16115542	1
Deletion	Chr8	16895193	16895215	22
Deletion	Chr10	17087722	17087730	8	LOC_Os10g32620
Deletion	Chr4	20186664	20186669	5
Deletion	Chr10	20544611	20544612	1
Deletion	Chr7	20642261	20642270	9	LOC_Os07g34410
Deletion	Chr8	21613382	21613390	8
Deletion	Chr11	21618775	21618781	6
Deletion	Chr5	23299236	23299237	1	LOC_Os05g39690
Deletion	Chr4	23521677	23521678	1
Deletion	Chr7	23940824	23940825	1
Deletion	Chr7	24144354	24144355	1
Deletion	Chr8	24222591	24222601	10
Deletion	Chr12	24801123	24801125	2
Deletion	Chr11	25676938	25676955	17	LOC_Os11g42640
Deletion	Chr3	26617676	26617677	1	LOC_Os03g47050
Deletion	Chr12	26695193	26695194	1
Deletion	Chr3	28211817	28211834	17
Deletion	Chr4	28784630	28784632	2
Deletion	Chr6	31100361	31100366	5
Deletion	Chr4	31588963	31588971	8
Deletion	Chr1	31843286	31843287	1
Deletion	Chr1	34007588	34007597	9
Deletion	Chr2	35762245	35762248	3	LOC_Os02g58490
Deletion	Chr3	36197599	36197600	1

Insertions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	7652148	7652155	8
Insertion	Chr1	22644925	22644926	2
Insertion	Chr2	11828613	11828613	1
Insertion	Chr3	25643060	25643119	60
Insertion	Chr4	16102848	16102848	1
Insertion	Chr4	21130579	21130580	2
Insertion	Chr5	19768810	19768811	2	LOC_Os05g33610
Insertion	Chr6	22027027	22027038	12
Insertion	Chr6	30084225	30084225	1
Insertion	Chr8	16464461	16464461	1
Insertion	Chr9	10707080	10707081	2
Insertion	Chr10	4300140	4300153	14

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	7562224	8321341

Translocations: 8

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	13069920	Chr4	18753766	LOC_Os09g21590
Translocation	Chr9	13069929	Chr4	18753548	LOC_Os09g21590
Translocation	Chr8	15920471	Chr3	19715626
Translocation	Chr8	15920939	Chr3	19715612	LOC_Os08g26170
Translocation	Chr11	16326998	Chr3	8164305
Translocation	Chr10	18819607	Chr1	15982556	LOC_Os10g35220
Translocation	Chr4	18854672	Chr3	12186486	LOC_Os03g21300
Translocation	Chr4	18859146	Chr3	12186577	LOC_Os03g21300

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