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Mutant Information

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

Mutant Name	FN1381-S [Download]
Generation	M2-SOS
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1381-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Very Low (Below 24%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 24

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 13362626 A-G Hetero INTERGENIC
SBS Chr1 32035549 T-G Homo INTERGENIC
SBS Chr3 13410195 G-T Homo INTERGENIC
SBS Chr3 14556089 C-T Homo INTERGENIC
SBS Chr3 26795489 T-A Homo INTERGENIC
SBS Chr3 35695586 G-A Homo INTERGENIC
SBS Chr4 8146349 C-T Homo INTERGENIC
SBS Chr4 20439457 A-G Homo INTERGENIC
SBS Chr4 23832420 C-T Homo INTERGENIC
SBS Chr4 34119573 A-T Homo UTR_3_PRIME
SBS Chr4 34901981 G-A Homo INTRON
SBS Chr5 18929748 T-C Homo NON_SYNONYMOUS_CODING OsKitaake05g148100
SBS Chr7 2773483 A-G Homo INTERGENIC
SBS Chr7 24353095 A-G Hetero INTERGENIC
SBS Chr8 10953206 C-T Hetero INTERGENIC
SBS Chr8 12106891 T-A Hetero INTERGENIC
SBS Chr8 16635988 G-A Hetero INTERGENIC
SBS Chr10 3108345 C-A Hetero INTERGENIC
SBS Chr10 7849152 T-A Hetero INTERGENIC
SBS Chr11 9573562 T-A Homo INTERGENIC
SBS Chr11 9573569 C-A Homo INTERGENIC
SBS Chr12 6207882 A-G Homo INTERGENIC
SBS Chr12 24036295 G-A Hetero SYNONYMOUS_CODING
SBS Chr12 26390667 A-G Homo INTERGENIC

Deletions: 16

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 1352005 1352006 1
Deletion Chr1 3891005 3891007 2
Deletion Chr12 7110835 7110836 1
Deletion Chr1 10234294 10234296 2
Deletion Chr6 10636524 10636624 100 OsKitaake06g119501
Deletion Chr9 12743510 12743511 1
Deletion Chr8 15843248 15843250 2
Deletion Chr1 17183686 17183851 165
Deletion Chr2 20098580 20098591 11
Deletion Chr4 20479679 20479689 10
Deletion Chr5 22262454 22262768 314 OsKitaake05g182000
Deletion Chr3 22461585 22461756 171
Deletion Chr12 26255760 26255761 1
Deletion Chr3 27382969 27382980 11
Deletion Chr4 28155543 28155544 1
Deletion Chr1 39774919 39774926 7 OsKitaake01g430100

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 13087880 13087883 2
Insertion Chr5 5594701 5594704 2
Insertion Chr8 15510257 15510260 2

Inversions: 3

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr6 1352302 1358487
Inversion Chr4 20480487 20777710
Inversion Chr4 20480559 20777700

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 20623465 Chr2 25288905
Translocation Chr6 29245723 Chr3 26107838 OsKitaake06g270800

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13362626	A-G	Hetero	INTERGENIC
SBS	Chr1	32035549	T-G	Homo	INTERGENIC
SBS	Chr3	13410195	G-T	Homo	INTERGENIC
SBS	Chr3	14556089	C-T	Homo	INTERGENIC
SBS	Chr3	26795489	T-A	Homo	INTERGENIC
SBS	Chr3	35695586	G-A	Homo	INTERGENIC
SBS	Chr4	8146349	C-T	Homo	INTERGENIC
SBS	Chr4	20439457	A-G	Homo	INTERGENIC
SBS	Chr4	23832420	C-T	Homo	INTERGENIC
SBS	Chr4	34119573	A-T	Homo	UTR_3_PRIME
SBS	Chr4	34901981	G-A	Homo	INTRON
SBS	Chr5	18929748	T-C	Homo	NON_SYNONYMOUS_CODING	OsKitaake05g148100
SBS	Chr7	2773483	A-G	Homo	INTERGENIC
SBS	Chr7	24353095	A-G	Hetero	INTERGENIC
SBS	Chr8	10953206	C-T	Hetero	INTERGENIC
SBS	Chr8	12106891	T-A	Hetero	INTERGENIC
SBS	Chr8	16635988	G-A	Hetero	INTERGENIC
SBS	Chr10	3108345	C-A	Hetero	INTERGENIC
SBS	Chr10	7849152	T-A	Hetero	INTERGENIC
SBS	Chr11	9573562	T-A	Homo	INTERGENIC
SBS	Chr11	9573569	C-A	Homo	INTERGENIC
SBS	Chr12	6207882	A-G	Homo	INTERGENIC
SBS	Chr12	24036295	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr12	26390667	A-G	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	1352005	1352006	1
Deletion	Chr1	3891005	3891007	2
Deletion	Chr12	7110835	7110836	1
Deletion	Chr1	10234294	10234296	2
Deletion	Chr6	10636524	10636624	100	OsKitaake06g119501
Deletion	Chr9	12743510	12743511	1
Deletion	Chr8	15843248	15843250	2
Deletion	Chr1	17183686	17183851	165
Deletion	Chr2	20098580	20098591	11
Deletion	Chr4	20479679	20479689	10
Deletion	Chr5	22262454	22262768	314	OsKitaake05g182000
Deletion	Chr3	22461585	22461756	171
Deletion	Chr12	26255760	26255761	1
Deletion	Chr3	27382969	27382980	11
Deletion	Chr4	28155543	28155544	1
Deletion	Chr1	39774919	39774926	7	OsKitaake01g430100

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	1352302	1358487
Inversion	Chr4	20480487	20777710
Inversion	Chr4	20480559	20777700

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Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes