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Mutant Information

SOS indicates the sequenced line is sterile and seeds from siblings are available.

Mutant Name	FN-50 [Download]
Generation	M2-SOS
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-50 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: 10

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	19713864	G-T	Homo	INTERGENIC
SBS	Chr3	1479076	T-C	Homo	INTRON
SBS	Chr4	8326043	G-A	Homo	INTERGENIC
SBS	Chr5	21203685	T-C	Homo	INTRON
SBS	Chr8	8159977	T-G	Homo	UTR_3_PRIME
SBS	Chr9	18007372	C-T	Homo	INTRON
SBS	Chr10	18056551	A-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os10g33940
SBS	Chr11	23528183	A-T	Homo	INTRON
SBS	Chr12	22737518	A-C	Homo	INTERGENIC
SBS	Chr12	23826389	A-T	Homo	INTRON

Deletions: 24

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr2	1760273	1760278	5
Deletion	Chr10	1910221	1910224	3
Deletion	Chr4	2677170	2677178	8	LOC_Os04g05370
Deletion	Chr8	3431722	3431723	1	LOC_Os08g06220
Deletion	Chr4	8477001	8863000	386000	64
Deletion	Chr7	9287772	9287805	33
Deletion	Chr2	11631001	11643000	12000
Deletion	Chr10	12999606	12999619	13	LOC_Os10g25180
Deletion	Chr7	13520009	13520014	5	LOC_Os07g23920
Deletion	Chr6	13956518	13956526	8
Deletion	Chr9	14446446	14446447	1
Deletion	Chr6	15135009	15135011	2
Deletion	Chr2	16017874	16017876	2
Deletion	Chr11	18769313	18769317	4
Deletion	Chr3	22481238	22481241	3
Deletion	Chr6	22492056	22492072	16	LOC_Os06g38040
Deletion	Chr8	23904092	23904094	2	LOC_Os08g37740
Deletion	Chr12	25227788	25227791	3
Deletion	Chr12	27478963	27478964	1
Deletion	Chr6	27897723	27897727	4
Deletion	Chr1	30422285	30422289	4	LOC_Os01g52910
Deletion	Chr1	31341027	31341028	1
Deletion	Chr3	32795544	32795565	21
Deletion	Chr3	33375023	33375024	1	LOC_Os03g58600

Insertions: 36

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr3	14193059	14193099	41
Insertion	Chr9	17152786	17152813	28
Insertion	Chr1	2549378	2549399	22
Insertion	Chr3	24268154	24268175	22
Insertion	Chr4	21426409	21426416	8
Insertion	Chr3	381152	381157	6
Insertion	Chr3	10202816	10202821	6
Insertion	Chr8	970783	970788	6
Insertion	Chr11	18804838	18804841	4
Insertion	Chr11	25885371	25885374	4
Insertion	Chr4	347730	347733	4
Insertion	Chr6	4464678	4464681	4
Insertion	Chr7	8045906	8045909	4
Insertion	Chr9	10786503	10786506	4
Insertion	Chr11	7038123	7038125	3
Insertion	Chr2	16958987	16958989	3
Insertion	Chr4	17788550	17788552	3
Insertion	Chr7	3643477	3643479	3
Insertion	Chr1	10172192	10172193	2
Insertion	Chr1	23912303	23912304	2
Insertion	Chr10	13690346	13690347	2
Insertion	Chr11	16367368	16367369	2
Insertion	Chr11	26038899	26038900	2
Insertion	Chr11	26129615	26129616	2
Insertion	Chr12	23461991	23461992	2
Insertion	Chr2	6394878	6394879	2
Insertion	Chr2	17850754	17850755	2
Insertion	Chr4	20356376	20356377	2
Insertion	Chr4	20701596	20701597	2
Insertion	Chr5	763686	763687	2	LOC_Os05g02350
Insertion	Chr5	7814999	7815000	2
Insertion	Chr8	20425353	20425354	2
Insertion	Chr3	26901345	26901345	1
Insertion	Chr5	267129	267129	1
Insertion	Chr5	16387468	16387468	1
Insertion	Chr7	17135544	17135544	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	11640727	13153786
Inversion	Chr2	12681053	13151441

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr6	200212	Chr5	25603983	2
Translocation	Chr6	205188	Chr5	25603982	2

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