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Mutant Information

Mutant Name	FN1656-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1656-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:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 27

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 817218 G-A Hetero SYNONYMOUS_CODING
SBS Chr1 25076843 A-C Hetero INTRON
SBS Chr2 16345080 A-T Hetero INTRON
SBS Chr2 16345081 A-T Hetero INTRON
SBS Chr2 30106454 G-C Hetero NON_SYNONYMOUS_CODING OsKitaake02g305700
SBS Chr3 2228294 C-G Homo INTERGENIC
SBS Chr3 4862350 G-A Hetero INTERGENIC
SBS Chr3 4929104 C-G Hetero INTERGENIC
SBS Chr3 5683916 A-C Hetero NON_SYNONYMOUS_CODING OsKitaake03g080600
SBS Chr3 12085846 G-A Homo SYNONYMOUS_CODING
SBS Chr3 12085847 T-A Homo NON_SYNONYMOUS_CODING OsKitaake03g164050
SBS Chr4 290030 C-T Hetero INTERGENIC
SBS Chr4 5795343 T-G Hetero INTERGENIC
SBS Chr4 9198091 G-A Hetero INTRON
SBS Chr4 26173310 G-A Hetero SYNONYMOUS_CODING
SBS Chr4 29076689 A-G Hetero INTERGENIC
SBS Chr4 29103502 A-C Hetero INTERGENIC
SBS Chr5 2165722 G-C Homo INTERGENIC
SBS Chr5 24518602 G-A Hetero INTERGENIC
SBS Chr6 28575010 G-A Hetero INTERGENIC
SBS Chr7 4524820 G-A Hetero INTERGENIC
SBS Chr7 16883519 G-A Hetero INTERGENIC
SBS Chr7 17800687 A-C Hetero INTERGENIC
SBS Chr8 24654255 C-T Hetero INTERGENIC
SBS Chr10 270235 G-A Homo NON_SYNONYMOUS_CODING OsKitaake10g001800
SBS Chr10 1257755 T-C Hetero INTERGENIC
SBS Chr12 7485738 A-T Hetero INTERGENIC

Deletions: 14

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr11 578194 578205 11
Deletion Chr12 1368466 1368467 1
Deletion Chr11 1627657 1627666 9
Deletion Chr5 2472160 2472164 4 OsKitaake05g028300
Deletion Chr11 3826261 3826263 2
Deletion Chr8 4732261 4732264 3
Deletion Chr4 7924222 7924223 1
Deletion Chr3 9541847 9541850 3
Deletion Chr8 14409967 14409976 9
Deletion Chr6 19167941 19167943 2
Deletion Chr4 19432001 19449000 16999 OsKitaake04g099601
Deletion Chr7 27328001 27340000 11999
Deletion Chr4 34185712 34185714 2
Deletion Chr1 38896992 38896996 4

Inversions: 3

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 13851703 14685914
Inversion Chr5 21807256 22329589 OsKitaake05g178000
Inversion Chr5 21808063 22329586 OsKitaake05g178000

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	817218	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr1	25076843	A-C	Hetero	INTRON
SBS	Chr2	16345080	A-T	Hetero	INTRON
SBS	Chr2	16345081	A-T	Hetero	INTRON
SBS	Chr2	30106454	G-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake02g305700
SBS	Chr3	2228294	C-G	Homo	INTERGENIC
SBS	Chr3	4862350	G-A	Hetero	INTERGENIC
SBS	Chr3	4929104	C-G	Hetero	INTERGENIC
SBS	Chr3	5683916	A-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g080600
SBS	Chr3	12085846	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr3	12085847	T-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake03g164050
SBS	Chr4	290030	C-T	Hetero	INTERGENIC
SBS	Chr4	5795343	T-G	Hetero	INTERGENIC
SBS	Chr4	9198091	G-A	Hetero	INTRON
SBS	Chr4	26173310	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr4	29076689	A-G	Hetero	INTERGENIC
SBS	Chr4	29103502	A-C	Hetero	INTERGENIC
SBS	Chr5	2165722	G-C	Homo	INTERGENIC
SBS	Chr5	24518602	G-A	Hetero	INTERGENIC
SBS	Chr6	28575010	G-A	Hetero	INTERGENIC
SBS	Chr7	4524820	G-A	Hetero	INTERGENIC
SBS	Chr7	16883519	G-A	Hetero	INTERGENIC
SBS	Chr7	17800687	A-C	Hetero	INTERGENIC
SBS	Chr8	24654255	C-T	Hetero	INTERGENIC
SBS	Chr10	270235	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake10g001800
SBS	Chr10	1257755	T-C	Hetero	INTERGENIC
SBS	Chr12	7485738	A-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr11	578194	578205	11
Deletion	Chr12	1368466	1368467	1
Deletion	Chr11	1627657	1627666	9
Deletion	Chr5	2472160	2472164	4	OsKitaake05g028300
Deletion	Chr11	3826261	3826263	2
Deletion	Chr8	4732261	4732264	3
Deletion	Chr4	7924222	7924223	1
Deletion	Chr3	9541847	9541850	3
Deletion	Chr8	14409967	14409976	9
Deletion	Chr6	19167941	19167943	2
Deletion	Chr4	19432001	19449000	16999	OsKitaake04g099601
Deletion	Chr7	27328001	27340000	11999
Deletion	Chr4	34185712	34185714	2
Deletion	Chr1	38896992	38896996	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	13851703	14685914
Inversion	Chr5	21807256	22329589	OsKitaake05g178000
Inversion	Chr5	21808063	22329586	OsKitaake05g178000

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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

Position 1

Position 2

Number of Genes