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Mutant Information

Mutant Name	FN2129-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2129-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: 41

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	21003504	A-G	Homo
SBS	Chr1	21300109	A-T	HET
SBS	Chr1	8564741	A-G	HET
SBS	Chr10	22066081	G-A	HET
SBS	Chr10	547227	G-A	Homo
SBS	Chr11	1737721	A-G	HET
SBS	Chr11	4095205	C-T	HET
SBS	Chr11	5453446	G-A	HET
SBS	Chr11	5740953	G-A	HET
SBS	Chr11	7552677	G-T	Homo
SBS	Chr12	17095009	C-T	HET
SBS	Chr12	20982105	C-T	Homo
SBS	Chr12	25191985	C-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os12g40690
SBS	Chr12	25191986	C-T	Homo
SBS	Chr12	6728569	C-T	HET
SBS	Chr2	118722	T-C	HET
SBS	Chr2	15335012	G-A	HET
SBS	Chr2	31101301	G-A	HET
SBS	Chr2	31101302	T-G	HET
SBS	Chr2	5830449	T-C	HET
SBS	Chr4	10840220	T-C	HET
SBS	Chr4	16341999	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os04g27650
SBS	Chr4	19149670	C-T	HET
SBS	Chr4	24947576	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g42140
SBS	Chr4	25290349	C-T	HET
SBS	Chr5	8654875	C-T	Homo
SBS	Chr6	22124585	C-T	Homo	SPLICE_SITE_ACCEPTOR	LOC_Os06g37420
SBS	Chr6	23022546	T-A	Homo
SBS	Chr6	23292428	A-G	Homo
SBS	Chr6	26581751	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os06g44070
SBS	Chr6	8763018	C-A	HET
SBS	Chr7	925081	T-C	Homo
SBS	Chr8	12282589	T-C	HET
SBS	Chr8	17259784	A-T	HET
SBS	Chr8	2466567	C-G	HET
SBS	Chr8	26954977	G-A	HET
SBS	Chr8	3604014	T-C	HET
SBS	Chr8	8049933	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g13540
SBS	Chr9	11041907	G-T	HET
SBS	Chr9	14356202	A-G	HET
SBS	Chr9	8099038	C-A	HET

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	329742	329748	6	LOC_Os11g01570
Deletion	Chr4	2766327	2766329	2
Deletion	Chr8	4727063	4727064	1
Deletion	Chr7	9443682	9443683	1
Deletion	Chr6	9795001	9956000	160999	26
Deletion	Chr2	10756220	10756221	1
Deletion	Chr4	12986778	12986781	3
Deletion	Chr3	13467920	13467921	1
Deletion	Chr4	17450648	17450649	1
Deletion	Chr12	17458537	17458540	3
Deletion	Chr3	17500003	17500004	1	LOC_Os03g30710
Deletion	Chr5	21755976	21755978	2
Deletion	Chr3	22841859	22841867	8
Deletion	Chr1	23122096	23122108	12
Deletion	Chr8	23789810	23789827	17
Deletion	Chr8	26717558	26717559	1
Deletion	Chr11	27141710	27141724	14
Deletion	Chr4	28412089	28412091	2
Deletion	Chr4	33812130	33812131	1	LOC_Os04g56700

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	23047852	23047853	2
Insertion	Chr1	31479258	31479259	2
Insertion	Chr10	12765858	12765859	2
Insertion	Chr4	1274218	1274220	3
Insertion	Chr8	13642396	13642396	1	LOC_Os08g22680
Insertion	Chr8	8733971	8733971	1

Inversions: 57

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	249197	249460	LOC_Os05g01430
Inversion	Chr9	2096813	2097180
Inversion	Chr11	2466816	2467085	LOC_Os11g05480
Inversion	Chr8	2543550	2543718
Inversion	Chr3	3026746	3027095	LOC_Os03g06050
Inversion	Chr6	3766375	3766624	LOC_Os06g07770
Inversion	Chr9	4177046	4177291
Inversion	Chr4	4353175	4353500	LOC_Os04g08190
Inversion	Chr2	5412191	5412325	LOC_Os02g10300
Inversion	Chr2	5894166	5894498
Inversion	Chr7	6083727	6084089
Inversion	Chr5	8551261	8551364	2
Inversion	Chr1	10400354	10400786
Inversion	Chr7	11547762	11548022
Inversion	Chr4	13243008	13243198
Inversion	Chr4	14069658	14069779
Inversion	Chr7	15406419	15406583	2
Inversion	Chr3	15436025	15436240
Inversion	Chr3	15647690	15647848	LOC_Os03g27310
Inversion	Chr12	15994306	15994774
Inversion	Chr9	17704917	17705144	LOC_Os09g29130
Inversion	Chr8	18480091	18480303	LOC_Os08g30060
Inversion	Chr5	19171982	19172114
Inversion	Chr10	19559818	19559994
Inversion	Chr9	20236561	20236663	LOC_Os09g34280
Inversion	Chr2	20530011	20530130	LOC_Os02g34310
Inversion	Chr11	20765444	20765873	LOC_Os11g35440
Inversion	Chr1	21127931	21128244	LOC_Os01g37770
Inversion	Chr10	21690272	21690718	2
Inversion	Chr8	21832090	21832245
Inversion	Chr10	21872168	21872280
Inversion	Chr4	22910244	22910411	2
Inversion	Chr5	23461523	23461797
Inversion	Chr7	23612713	23612924	2
Inversion	Chr5	24028787	24029014	LOC_Os05g40990
Inversion	Chr4	24472422	24472522	LOC_Os04g41250
Inversion	Chr1	25092253	25092533
Inversion	Chr5	25915536	25915987	LOC_Os05g44550
Inversion	Chr5	26384546	26384816	2
Inversion	Chr4	26667804	26667996	LOC_Os04g45070
Inversion	Chr11	26945585	26945889	LOC_Os11g44560
Inversion	Chr1	27326379	27326568	LOC_Os01g47760
Inversion	Chr12	27377051	27377189	LOC_Os12g44130
Inversion	Chr11	28129772	28130316
Inversion	Chr5	28253745	28254166	LOC_Os05g49250
Inversion	Chr4	28816553	28816940
Inversion	Chr4	28940446	28940605	LOC_Os04g48550
Inversion	Chr6	28951040	28951481	LOC_Os06g47834
Inversion	Chr4	28979057	28979199
Inversion	Chr1	29522811	29523055	LOC_Os01g51330
Inversion	Chr2	29606242	29606645	LOC_Os02g48360
Inversion	Chr3	30050008	30050244
Inversion	Chr4	31410507	31410899	LOC_Os04g52750
Inversion	Chr3	34183301	34183709
Inversion	Chr2	34346430	34346714
Inversion	Chr3	35786861	35787219
Inversion	Chr1	40678122	40678460

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	26002703	Chr6	9594568

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