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Mutant Information

Mutant Name	FN2138-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2138-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	21289564	A-G	HET
SBS	Chr1	21512527	G-A	HET
SBS	Chr1	28177824	C-T	HET
SBS	Chr2	12884109	C-T	HET
SBS	Chr3	2473544	A-T	HET
SBS	Chr3	16352083	G-A	HET
SBS	Chr3	17498028	G-A	HET
SBS	Chr3	19763328	C-G	HET
SBS	Chr3	22298624	C-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os03g40130
SBS	Chr3	22298626	G-A	Homo
SBS	Chr5	4103322	C-A	HET
SBS	Chr5	12110483	G-A	HET
SBS	Chr5	12345068	T-C	Homo
SBS	Chr5	19965013	G-A	HET
SBS	Chr5	21308295	C-T	HET
SBS	Chr5	28568909	G-A	HET
SBS	Chr6	8181951	C-A	HET
SBS	Chr6	9642642	C-T	HET
SBS	Chr6	22106664	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g37400
SBS	Chr6	25263784	G-A	HET
SBS	Chr7	6732298	A-C	HET
SBS	Chr7	8060894	G-A	HET
SBS	Chr7	27013533	G-A	HET
SBS	Chr7	28684491	G-A	Homo
SBS	Chr8	1940806	G-T	HET
SBS	Chr8	3432260	G-A	HET
SBS	Chr8	6647771	A-G	HET
SBS	Chr8	17782938	A-C	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g29040
SBS	Chr8	17782939	C-T	Homo
SBS	Chr8	17910888	A-T	Homo
SBS	Chr8	25226422	A-G	HET
SBS	Chr9	10984281	T-G	HET
SBS	Chr9	16873445	T-A	HET
SBS	Chr10	6014444	A-G	HET
SBS	Chr10	21678185	T-A	HET
SBS	Chr10	21678186	A-T	HET
SBS	Chr11	5295704	C-A	Homo
SBS	Chr11	21073679	G-T	HET
SBS	Chr11	23872934	C-G	HET
SBS	Chr12	12351079	T-C	Homo
SBS	Chr12	19278147	G-A	HET

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	332832	332835	3
Deletion	Chr10	701702	701703	1
Deletion	Chr10	1521079	1521080	1
Deletion	Chr3	2172151	2172152	1
Deletion	Chr4	11145045	11145063	18
Deletion	Chr1	13822497	13822498	1
Deletion	Chr1	14189352	14189354	2
Deletion	Chr6	15988354	15988356	2
Deletion	Chr5	16829196	16829197	1
Deletion	Chr3	17120001	17135000	14999	3
Deletion	Chr3	17137001	17205000	67999	11
Deletion	Chr11	18695192	18695193	1
Deletion	Chr9	20345692	20345694	2
Deletion	Chr9	20594222	20594229	7	LOC_Os09g35790
Deletion	Chr8	23317515	23317526	11
Deletion	Chr11	25025977	25025978	1
Deletion	Chr11	26423925	26423926	1
Deletion	Chr1	41630001	41650000	19999	3
Deletion	Chr1	41658001	41674000	15999	3

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr9	6845009	6845010	2
Insertion	Chr12	7141160	7141181	22

Inversions: 18

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	165393	165816
Inversion	Chr12	10619017	10619500
Inversion	Chr2	13544288	13545153	2
Inversion	Chr2	13544306	13545192
Inversion	Chr6	14274114	14274487	LOC_Os06g24380
Inversion	Chr3	17200617	17564951	2
Inversion	Chr3	17345626	17564942	2
Inversion	Chr3	18033830	18033940	LOC_Os03g31594
Inversion	Chr6	19313285	19313616
Inversion	Chr7	19901739	19902252
Inversion	Chr5	22854964	22855139	LOC_Os05g38960
Inversion	Chr12	23407618	23408191	LOC_Os12g38110
Inversion	Chr7	27012352	27014884	2
Inversion	Chr7	27012354	27014890	2
Inversion	Chr2	27044489	27044651	LOC_Os02g44630
Inversion	Chr1	30713700	30713948	LOC_Os01g53450
Inversion	Chr1	39913661	39913782
Inversion	Chr1	41400767	41631724	2

Translocations: 8

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	4130949	Chr8	16722815	2
Translocation	Chr9	10385374	Chr7	16499426
Translocation	Chr8	15634174	Chr2	17221296
Translocation	Chr8	15635735	Chr3	15137860
Translocation	Chr8	15636021	Chr3	15137855
Translocation	Chr7	20705155	Chr4	6012899	LOC_Os07g34529
Translocation	Chr12	24917832	Chr8	15635687
Translocation	Chr12	24917836	Chr8	15634189

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