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Mutant Information

Mutant Name	FN1230-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1230-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: 31

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 4335722 A-G Homo NON_SYNONYMOUS_CODING OsKitaake01g057700
SBS Chr1 35424297 G-A Homo UTR_3_PRIME
SBS Chr2 417318 C-T Hetero SYNONYMOUS_CODING
SBS Chr2 1274539 G-T Hetero INTERGENIC
SBS Chr2 2121679 C-T Homo INTERGENIC
SBS Chr2 9587343 C-G Hetero INTERGENIC
SBS Chr2 15546955 G-A Hetero INTERGENIC
SBS Chr2 22953322 G-A Homo INTERGENIC
SBS Chr2 24725089 C-T Homo INTERGENIC
SBS Chr3 11612944 G-A Hetero INTERGENIC
SBS Chr3 19824065 C-T Hetero INTERGENIC
SBS Chr4 799707 A-G Homo INTERGENIC
SBS Chr4 19909003 G-A Hetero INTERGENIC
SBS Chr5 30121729 C-G Homo INTERGENIC
SBS Chr6 16180725 G-A Hetero INTERGENIC
SBS Chr6 30758405 T-A Hetero INTERGENIC
SBS Chr7 11227229 G-A Hetero INTERGENIC
SBS Chr7 23879361 A-G Hetero INTERGENIC
SBS Chr8 25455113 C-A Homo INTRON
SBS Chr9 1324188 T-C Hetero INTERGENIC
SBS Chr9 5929173 C-T Hetero INTRON
SBS Chr9 6672782 A-T Hetero INTERGENIC
SBS Chr10 20119606 T-G Hetero SPLICE_SITE_REGION
SBS Chr10 20455195 A-T Hetero INTRON
SBS Chr10 20908334 G-C Hetero INTERGENIC
SBS Chr10 22155717 A-G Hetero INTRON
SBS Chr10 22722585 A-T Hetero INTERGENIC
SBS Chr11 10988746 G-A Homo INTERGENIC
SBS Chr12 8027010 A-G Hetero INTERGENIC
SBS Chr12 9945206 G-A Homo INTERGENIC
SBS Chr12 11770876 C-A Homo INTERGENIC

Deletions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr12 9326948 9326951 3
Deletion Chr10 20950567 20950568 1 OsKitaake10g161800

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr6 3318534 3318537 2
Insertion Chr6 10242391 10242394 2
Insertion Chr7 11037064 11037067 2
Insertion Chr8 22823116 22823118 1

Inversions: 8

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 1274439 2025662 OsKitaake02g030700
Inversion Chr2 1274446 1354546 OsKitaake02g020800
Inversion Chr2 2025668 2857948 2
Inversion Chr6 25796056 25825630 OsKitaake06g229700
Inversion Chr6 25796062 25827870 OsKitaake06g229700
Inversion Chr5 26122520 26728180 2
Inversion Chr5 26122526 26728182 2
Inversion Chr2 30918426 30925767

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4335722	A-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g057700
SBS	Chr1	35424297	G-A	Homo	UTR_3_PRIME
SBS	Chr2	417318	C-T	Hetero	SYNONYMOUS_CODING
SBS	Chr2	1274539	G-T	Hetero	INTERGENIC
SBS	Chr2	2121679	C-T	Homo	INTERGENIC
SBS	Chr2	9587343	C-G	Hetero	INTERGENIC
SBS	Chr2	15546955	G-A	Hetero	INTERGENIC
SBS	Chr2	22953322	G-A	Homo	INTERGENIC
SBS	Chr2	24725089	C-T	Homo	INTERGENIC
SBS	Chr3	11612944	G-A	Hetero	INTERGENIC
SBS	Chr3	19824065	C-T	Hetero	INTERGENIC
SBS	Chr4	799707	A-G	Homo	INTERGENIC
SBS	Chr4	19909003	G-A	Hetero	INTERGENIC
SBS	Chr5	30121729	C-G	Homo	INTERGENIC
SBS	Chr6	16180725	G-A	Hetero	INTERGENIC
SBS	Chr6	30758405	T-A	Hetero	INTERGENIC
SBS	Chr7	11227229	G-A	Hetero	INTERGENIC
SBS	Chr7	23879361	A-G	Hetero	INTERGENIC
SBS	Chr8	25455113	C-A	Homo	INTRON
SBS	Chr9	1324188	T-C	Hetero	INTERGENIC
SBS	Chr9	5929173	C-T	Hetero	INTRON
SBS	Chr9	6672782	A-T	Hetero	INTERGENIC
SBS	Chr10	20119606	T-G	Hetero	SPLICE_SITE_REGION
SBS	Chr10	20455195	A-T	Hetero	INTRON
SBS	Chr10	20908334	G-C	Hetero	INTERGENIC
SBS	Chr10	22155717	A-G	Hetero	INTRON
SBS	Chr10	22722585	A-T	Hetero	INTERGENIC
SBS	Chr11	10988746	G-A	Homo	INTERGENIC
SBS	Chr12	8027010	A-G	Hetero	INTERGENIC
SBS	Chr12	9945206	G-A	Homo	INTERGENIC
SBS	Chr12	11770876	C-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr12	9326948	9326951	3
Deletion	Chr10	20950567	20950568	1	OsKitaake10g161800

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	1274439	2025662	OsKitaake02g030700
Inversion	Chr2	1274446	1354546	OsKitaake02g020800
Inversion	Chr2	2025668	2857948	2
Inversion	Chr6	25796056	25825630	OsKitaake06g229700
Inversion	Chr6	25796062	25827870	OsKitaake06g229700
Inversion	Chr5	26122520	26728180	2
Inversion	Chr5	26122526	26728182	2
Inversion	Chr2	30918426	30925767

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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