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Mutant Information

Mutant Name	FN1290-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1290-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: 28

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 15984962 C-G Homo INTERGENIC
SBS Chr1 16965655 C-T Hetero INTERGENIC
SBS Chr1 29828755 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake01g292966
SBS Chr2 34683054 C-T Hetero INTERGENIC
SBS Chr2 34894317 A-G Hetero INTRON
SBS Chr3 9315982 G-A Hetero INTERGENIC
SBS Chr3 14911942 G-T Hetero INTERGENIC
SBS Chr3 24244207 C-T Homo INTERGENIC
SBS Chr3 26975475 C-T Homo INTERGENIC
SBS Chr4 7821413 C-A Homo INTERGENIC
SBS Chr4 20231400 C-T Homo INTERGENIC
SBS Chr4 30299130 C-G Hetero INTERGENIC
SBS Chr5 4847504 C-A Homo NON_SYNONYMOUS_CODING OsKitaake05g054200
SBS Chr5 8509043 G-T Hetero INTERGENIC
SBS Chr5 9896839 A-G Hetero INTERGENIC
SBS Chr5 13255633 G-A Hetero INTERGENIC
SBS Chr5 17436035 C-G Hetero INTERGENIC
SBS Chr5 18881368 G-A Hetero INTERGENIC
SBS Chr6 18581449 C-T Hetero INTERGENIC
SBS Chr6 21723579 C-T Hetero INTRON
SBS Chr7 8629322 A-G Homo INTERGENIC
SBS Chr7 28689828 T-A Hetero INTERGENIC
SBS Chr9 8279362 A-T Hetero INTERGENIC
SBS Chr10 21100428 T-A Homo INTERGENIC
SBS Chr11 3205576 T-C Hetero INTERGENIC
SBS Chr11 17350862 C-T Hetero UTR_5_PRIME
SBS Chr11 21586488 T-C Homo INTRON
SBS Chr11 22297332 C-A Hetero INTERGENIC

Deletions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 734001 787000 52999 8
Deletion Chr4 2476557 2476565 8
Deletion Chr7 2778452 2778460 8
Deletion Chr8 5632502 5632503 1
Deletion Chr7 10260142 10260144 2
Deletion Chr2 13045059 13045075 16
Deletion Chr4 13962183 13962188 5
Deletion Chr2 16688371 16688381 10
Deletion Chr6 20062940 20062947 7
Deletion Chr12 22305181 22305189 8
Deletion Chr3 31191836 31191837 1

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 12124056 12241058

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15984962	C-G	Homo	INTERGENIC
SBS	Chr1	16965655	C-T	Hetero	INTERGENIC
SBS	Chr1	29828755	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g292966
SBS	Chr2	34683054	C-T	Hetero	INTERGENIC
SBS	Chr2	34894317	A-G	Hetero	INTRON
SBS	Chr3	9315982	G-A	Hetero	INTERGENIC
SBS	Chr3	14911942	G-T	Hetero	INTERGENIC
SBS	Chr3	24244207	C-T	Homo	INTERGENIC
SBS	Chr3	26975475	C-T	Homo	INTERGENIC
SBS	Chr4	7821413	C-A	Homo	INTERGENIC
SBS	Chr4	20231400	C-T	Homo	INTERGENIC
SBS	Chr4	30299130	C-G	Hetero	INTERGENIC
SBS	Chr5	4847504	C-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake05g054200
SBS	Chr5	8509043	G-T	Hetero	INTERGENIC
SBS	Chr5	9896839	A-G	Hetero	INTERGENIC
SBS	Chr5	13255633	G-A	Hetero	INTERGENIC
SBS	Chr5	17436035	C-G	Hetero	INTERGENIC
SBS	Chr5	18881368	G-A	Hetero	INTERGENIC
SBS	Chr6	18581449	C-T	Hetero	INTERGENIC
SBS	Chr6	21723579	C-T	Hetero	INTRON
SBS	Chr7	8629322	A-G	Homo	INTERGENIC
SBS	Chr7	28689828	T-A	Hetero	INTERGENIC
SBS	Chr9	8279362	A-T	Hetero	INTERGENIC
SBS	Chr10	21100428	T-A	Homo	INTERGENIC
SBS	Chr11	3205576	T-C	Hetero	INTERGENIC
SBS	Chr11	17350862	C-T	Hetero	UTR_5_PRIME
SBS	Chr11	21586488	T-C	Homo	INTRON
SBS	Chr11	22297332	C-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	734001	787000	52999	8
Deletion	Chr4	2476557	2476565	8
Deletion	Chr7	2778452	2778460	8
Deletion	Chr8	5632502	5632503	1
Deletion	Chr7	10260142	10260144	2
Deletion	Chr2	13045059	13045075	16
Deletion	Chr4	13962183	13962188	5
Deletion	Chr2	16688371	16688381	10
Deletion	Chr6	20062940	20062947	7
Deletion	Chr12	22305181	22305189	8
Deletion	Chr3	31191836	31191837	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	12124056	12241058

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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