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Mutant Information

Mutant Name	FN2136-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2136-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) 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	398691	T-A	Homo
SBS	Chr1	4055625	C-T	HET
SBS	Chr1	11878332	G-A	HET
SBS	Chr1	12947225	G-C	HET
SBS	Chr1	15043653	C-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os01g27000
SBS	Chr1	18892358	T-A	HET
SBS	Chr1	27196142	G-A	Homo
SBS	Chr1	30648371	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os01g53330
SBS	Chr1	30672819	C-T	HET
SBS	Chr1	38386333	A-G	HET
SBS	Chr1	39991000	T-C	HET
SBS	Chr2	15154967	C-A	HET
SBS	Chr2	16684990	C-A	HET
SBS	Chr2	20198895	T-C	HET
SBS	Chr2	22686389	C-T	HET
SBS	Chr2	28034651	G-A	HET
SBS	Chr2	33962623	T-C	HET
SBS	Chr3	15348921	G-A	HET
SBS	Chr3	32593495	T-C	Homo
SBS	Chr3	34984883	T-C	Homo
SBS	Chr4	10303822	C-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os04g18640
SBS	Chr4	11700727	C-T	HET
SBS	Chr5	8008017	C-T	HET
SBS	Chr5	23775682	C-T	HET
SBS	Chr6	2276133	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os06g05130
SBS	Chr6	9690764	T-C	HET
SBS	Chr6	11887818	G-A	HET
SBS	Chr6	15371710	A-T	HET
SBS	Chr6	22675157	G-A	HET
SBS	Chr7	7596647	A-G	HET
SBS	Chr7	18978982	G-C	HET
SBS	Chr8	4787468	C-G	HET
SBS	Chr8	9695568	A-T	HET
SBS	Chr8	14743690	T-C	HET
SBS	Chr8	15667984	G-A	HET
SBS	Chr8	25383422	C-A	HET
SBS	Chr9	15542034	C-G	HET
SBS	Chr9	16670791	A-G	HET
SBS	Chr10	7095378	G-A	HET
SBS	Chr10	9546825	G-A	HET
SBS	Chr10	11199398	A-G	HET
SBS	Chr10	13997172	A-T	Homo
SBS	Chr11	3945656	T-C	Homo
SBS	Chr11	26838000	C-T	HET
SBS	Chr12	8208520	C-T	HET
SBS	Chr12	8350435	T-C	HET
SBS	Chr12	9044849	T-C	HET
SBS	Chr12	9962031	C-T	HET
SBS	Chr12	9962038	C-G	HET
SBS	Chr12	14280052	A-G	HET
SBS	Chr12	26734450	C-T	HET

Deletions: 17

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	338332	338333	1
Deletion	Chr8	4296376	4296377	1
Deletion	Chr2	7261502	7261509	7
Deletion	Chr11	7908414	7908418	4
Deletion	Chr12	10004576	10004577	1	LOC_Os12g17460
Deletion	Chr5	10682425	10682443	18	LOC_Os05g18480
Deletion	Chr4	10693289	10693301	12
Deletion	Chr11	11732240	11732241	1	LOC_Os11g20300
Deletion	Chr2	18689587	18689588	1
Deletion	Chr5	20788808	20788812	4
Deletion	Chr12	20992031	20992032	1
Deletion	Chr6	23235833	23235839	6
Deletion	Chr11	24842261	24842271	10
Deletion	Chr8	25389001	25399000	9999	2
Deletion	Chr8	25819001	25866000	46999	7
Deletion	Chr5	27317506	27317507	1	LOC_Os05g47670
Deletion	Chr5	29943675	29944022	347

Insertions: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr5	5186583	5186603	21

Inversions: 43

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	550872	551046	LOC_Os07g01904
Inversion	Chr2	853055	853718
Inversion	Chr5	1916558	1916973
Inversion	Chr7	1937348	1937480
Inversion	Chr12	2441531	2441774	LOC_Os12g05394
Inversion	Chr10	2751974	2752143
Inversion	Chr12	4200717	4201128	LOC_Os12g08230
Inversion	Chr9	4424272	4424567	LOC_Os09g08470
Inversion	Chr5	5423730	5423890
Inversion	Chr8	5876231	5876393
Inversion	Chr9	7801630	7802033
Inversion	Chr10	9522798	9553806
Inversion	Chr11	10117100	10117328	LOC_Os11g18000
Inversion	Chr1	11507247	11507516
Inversion	Chr12	11762206	11762324	LOC_Os12g20190
Inversion	Chr9	11896272	11896410	LOC_Os09g19880
Inversion	Chr5	12340655	12341175	LOC_Os05g20970
Inversion	Chr1	13449153	13449327	LOC_Os01g23900
Inversion	Chr2	14355041	14355416
Inversion	Chr11	14563577	14563800
Inversion	Chr1	14934028	14934330
Inversion	Chr3	16209589	16209722	LOC_Os03g28160
Inversion	Chr11	16890287	16890456
Inversion	Chr8	17605868	17606331	2
Inversion	Chr7	18914090	18914585	LOC_Os07g31830
Inversion	Chr6	19788469	19788979
Inversion	Chr11	20636181	20636431
Inversion	Chr10	20700089	20700635
Inversion	Chr3	22383814	22384099	LOC_Os03g40270
Inversion	Chr4	23240744	23241051
Inversion	Chr5	23639003	23639315
Inversion	Chr8	25812554	25821443	2
Inversion	Chr4	26015741	26015942	LOC_Os04g43910
Inversion	Chr12	26780889	26781021	LOC_Os12g43130
Inversion	Chr2	27556613	27556746
Inversion	Chr4	28167724	28168031
Inversion	Chr4	29507661	29508174	LOC_Os04g49460
Inversion	Chr4	29792202	29792374	LOC_Os04g49950
Inversion	Chr4	30547246	30547750
Inversion	Chr1	30703873	31256506
Inversion	Chr1	30703874	31256509
Inversion	Chr3	32011420	32011636
Inversion	Chr1	39413333	39413816

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	9546782	Chr2	7976056	2
Translocation	Chr10	9553791	Chr2	7976047	2
Translocation	Chr10	10502837	Chr9	7055071
Translocation	Chr11	16926121	Chr1	36199540

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