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Mutant Information

Mutant Name	FN1252-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1252-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 36

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 3233602 T-C Homo INTERGENIC
SBS Chr1 3892810 C-T Homo INTERGENIC
SBS Chr1 5676839 T-C Hetero INTERGENIC
SBS Chr1 20514909 T-C Hetero INTERGENIC
SBS Chr1 20526244 C-T Hetero INTERGENIC
SBS Chr1 20565562 A-T Hetero INTERGENIC
SBS Chr1 25931727 G-T Hetero INTERGENIC
SBS Chr2 8771678 C-A Hetero INTRON
SBS Chr3 19958097 A-T Homo INTERGENIC
SBS Chr3 22789477 C-T Homo INTERGENIC
SBS Chr3 28022781 G-A Homo INTERGENIC
SBS Chr4 11467268 G-A Hetero INTERGENIC
SBS Chr4 13445443 G-T Hetero INTERGENIC
SBS Chr4 14116308 C-A Hetero INTERGENIC
SBS Chr4 20328617 G-A Hetero UTR_3_PRIME
SBS Chr5 14053184 G-A Hetero INTERGENIC
SBS Chr5 19076285 C-A Hetero INTERGENIC
SBS Chr5 26071970 G-A Hetero INTERGENIC
SBS Chr5 27960927 C-T Hetero INTERGENIC
SBS Chr6 11461655 T-C Hetero INTERGENIC
SBS Chr6 12444557 G-C Homo INTERGENIC
SBS Chr6 21972696 C-T Hetero INTRON
SBS Chr6 29315276 G-A Hetero INTERGENIC
SBS Chr8 862403 T-A Homo INTERGENIC
SBS Chr8 862909 G-A Homo INTERGENIC
SBS Chr8 2089208 G-A Hetero SYNONYMOUS_CODING
SBS Chr8 22673795 T-C Hetero INTERGENIC
SBS Chr9 5624191 T-A Homo INTERGENIC
SBS Chr10 199034 C-A Hetero INTERGENIC
SBS Chr10 2152822 T-A Hetero INTERGENIC
SBS Chr10 7238620 G-C Hetero INTERGENIC
SBS Chr10 9493029 T-A Hetero INTERGENIC
SBS Chr10 9493030 G-A Hetero INTERGENIC
SBS Chr10 12933433 T-C Hetero INTERGENIC
SBS Chr12 7962495 C-T Hetero INTERGENIC
SBS Chr12 13978218 G-A Hetero INTERGENIC

Deletions: 9

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 18326 18327 1
Deletion Chr12 1506644 1506662 18
Deletion Chr8 2516001 2545000 28999 OsKitaake08g029600
Deletion Chr8 2592551 2592554 3 OsKitaake08g029900
Deletion Chr7 10157189 10157191 2
Deletion Chr9 12984115 12984117 2
Deletion Chr5 20341344 20341347 3
Deletion Chr12 20734708 20734710 2
Deletion Chr6 22174464 22174468 4

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 16694600 16694608 7
Insertion Chr11 19546525 19546527 1
Insertion Chr6 98647 98649 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 11946894 11952958 OsKitaake02g135800
Inversion Chr2 11946897 11952966 OsKitaake02g135800

Translocations: 9

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr8 2378925 Chr3 6319166
Translocation Chr8 2378988 Chr3 6319155
Translocation Chr8 2379006 Chr4 34545986 OsKitaake04g288100
Translocation Chr8 2543692 Chr3 22306306 OsKitaake03g242500
Translocation Chr8 5630006 Chr3 22306458 OsKitaake03g242500
Translocation Chr8 5630012 Chr4 34549029
Translocation Chr4 32432648 Chr2 34419665
Translocation Chr4 32433079 Chr2 34419671
Translocation Chr4 32433711 Chr3 636588

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3233602	T-C	Homo	INTERGENIC
SBS	Chr1	3892810	C-T	Homo	INTERGENIC
SBS	Chr1	5676839	T-C	Hetero	INTERGENIC
SBS	Chr1	20514909	T-C	Hetero	INTERGENIC
SBS	Chr1	20526244	C-T	Hetero	INTERGENIC
SBS	Chr1	20565562	A-T	Hetero	INTERGENIC
SBS	Chr1	25931727	G-T	Hetero	INTERGENIC
SBS	Chr2	8771678	C-A	Hetero	INTRON
SBS	Chr3	19958097	A-T	Homo	INTERGENIC
SBS	Chr3	22789477	C-T	Homo	INTERGENIC
SBS	Chr3	28022781	G-A	Homo	INTERGENIC
SBS	Chr4	11467268	G-A	Hetero	INTERGENIC
SBS	Chr4	13445443	G-T	Hetero	INTERGENIC
SBS	Chr4	14116308	C-A	Hetero	INTERGENIC
SBS	Chr4	20328617	G-A	Hetero	UTR_3_PRIME
SBS	Chr5	14053184	G-A	Hetero	INTERGENIC
SBS	Chr5	19076285	C-A	Hetero	INTERGENIC
SBS	Chr5	26071970	G-A	Hetero	INTERGENIC
SBS	Chr5	27960927	C-T	Hetero	INTERGENIC
SBS	Chr6	11461655	T-C	Hetero	INTERGENIC
SBS	Chr6	12444557	G-C	Homo	INTERGENIC
SBS	Chr6	21972696	C-T	Hetero	INTRON
SBS	Chr6	29315276	G-A	Hetero	INTERGENIC
SBS	Chr8	862403	T-A	Homo	INTERGENIC
SBS	Chr8	862909	G-A	Homo	INTERGENIC
SBS	Chr8	2089208	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr8	22673795	T-C	Hetero	INTERGENIC
SBS	Chr9	5624191	T-A	Homo	INTERGENIC
SBS	Chr10	199034	C-A	Hetero	INTERGENIC
SBS	Chr10	2152822	T-A	Hetero	INTERGENIC
SBS	Chr10	7238620	G-C	Hetero	INTERGENIC
SBS	Chr10	9493029	T-A	Hetero	INTERGENIC
SBS	Chr10	9493030	G-A	Hetero	INTERGENIC
SBS	Chr10	12933433	T-C	Hetero	INTERGENIC
SBS	Chr12	7962495	C-T	Hetero	INTERGENIC
SBS	Chr12	13978218	G-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	18326	18327	1
Deletion	Chr12	1506644	1506662	18
Deletion	Chr8	2516001	2545000	28999	OsKitaake08g029600
Deletion	Chr8	2592551	2592554	3	OsKitaake08g029900
Deletion	Chr7	10157189	10157191	2
Deletion	Chr9	12984115	12984117	2
Deletion	Chr5	20341344	20341347	3
Deletion	Chr12	20734708	20734710	2
Deletion	Chr6	22174464	22174468	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	11946894	11952958	OsKitaake02g135800
Inversion	Chr2	11946897	11952966	OsKitaake02g135800

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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