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Mutant Information

Mutant Name	FN2628-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2628-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: 35

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13942293	A-C	HET
SBS	Chr1	28792562	G-A	HET
SBS	Chr1	39337924	A-C	Homo	STOP_GAINED	LOC_Os01g67690
SBS	Chr1	41526416	T-C	HET
SBS	Chr12	23864662	T-A	HET
SBS	Chr2	11692986	G-C	HET
SBS	Chr2	17223595	T-A	HET
SBS	Chr2	25965227	C-T	HET
SBS	Chr2	3948092	C-T	HET
SBS	Chr2	4831052	T-A	Homo
SBS	Chr3	20002821	C-T	HET
SBS	Chr3	22723610	A-C	HET
SBS	Chr3	24696199	C-T	HET
SBS	Chr3	29195044	C-G	HET
SBS	Chr3	34949871	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os03g61660
SBS	Chr3	6225314	T-G	Homo
SBS	Chr4	15324068	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os04g26290
SBS	Chr4	6485519	G-T	HET
SBS	Chr4	9280385	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g16950
SBS	Chr5	13454900	A-G	Homo
SBS	Chr5	9230924	C-A	HET
SBS	Chr6	15198562	G-A	HET
SBS	Chr6	17222179	A-T	HET
SBS	Chr6	17240615	C-T	HET
SBS	Chr6	19500464	A-G	HET
SBS	Chr6	8010782	G-C	HET
SBS	Chr7	1210697	A-G	HET
SBS	Chr7	5684305	T-C	Homo	NON_SYNONYMOUS_CODING	LOC_Os07g10530
SBS	Chr7	7658135	A-G	Homo
SBS	Chr7	8716231	A-G	Homo
SBS	Chr8	21369574	G-A	HET
SBS	Chr8	28014143	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g44560
SBS	Chr9	14382993	T-A	HET
SBS	Chr9	19501745	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g32680
SBS	Chr9	8390031	C-T	HET

Deletions: 16

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	261001	428000	166999	33
Deletion	Chr9	614001	661000	46999	4
Deletion	Chr11	1631826	1631830	4
Deletion	Chr6	3959048	3959050	2
Deletion	Chr12	8249689	8249691	2
Deletion	Chr6	8968468	8968472	4
Deletion	Chr1	10098199	10098202	3
Deletion	Chr1	12439001	12646000	206999	27
Deletion	Chr3	13606383	13606384	1
Deletion	Chr7	20044143	20044165	22
Deletion	Chr11	20804001	20817000	12999	2
Deletion	Chr3	21697604	21697612	8
Deletion	Chr7	23826436	23826453	17
Deletion	Chr1	28308352	28308354	2	LOC_Os01g49240
Deletion	Chr7	29095606	29095610	4
Deletion	Chr1	35035999	35036000	1

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr7	14816250	14816287	38
Insertion	Chr8	16241014	16241015	2

No Inversion

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	618996	Chr1	8782007
Translocation	Chr9	659676	Chr1	8781750
Translocation	Chr12	6749843	Chr9	20542177	2
Translocation	Chr12	6756199	Chr3	4676764	LOC_Os12g12290
Translocation	Chr9	20541719	Chr3	4676765
Translocation	Chr11	26972550	Chr1	35452941	2

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