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Mutant Information

Mutant Name	FN1389-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1389-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) = High (Between 126% and 175%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 40

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 10046027 C-T Hetero INTERGENIC
SBS Chr1 12855712 G-A Homo SYNONYMOUS_CODING
SBS Chr1 33352127 C-T Hetero UTR_5_PRIME
SBS Chr2 8187610 C-T Hetero INTERGENIC
SBS Chr2 34537176 A-G Hetero INTERGENIC
SBS Chr3 14637200 C-T Homo INTERGENIC
SBS Chr3 22657929 C-G Hetero INTERGENIC
SBS Chr3 25915509 G-A Hetero INTERGENIC
SBS Chr3 36476661 G-A Homo INTRON
SBS Chr3 37415060 G-T Hetero INTERGENIC
SBS Chr4 36343556 A-G Homo INTERGENIC
SBS Chr5 5701281 C-T Homo INTERGENIC
SBS Chr5 14883906 C-T Hetero INTERGENIC
SBS Chr5 15392746 T-A Hetero INTERGENIC
SBS Chr6 13498652 A-G Hetero INTERGENIC
SBS Chr6 14815213 G-A Hetero INTERGENIC
SBS Chr6 16966921 T-G Homo INTRON
SBS Chr7 9263403 C-T Homo INTERGENIC
SBS Chr7 10379762 G-T Hetero INTERGENIC
SBS Chr7 14458653 T-C Hetero INTERGENIC
SBS Chr7 14458819 T-A Hetero INTERGENIC
SBS Chr7 16861694 C-T Hetero INTERGENIC
SBS Chr9 680597 C-T Hetero INTERGENIC
SBS Chr9 822946 T-A Hetero UTR_3_PRIME
SBS Chr9 2527794 T-A Hetero INTERGENIC
SBS Chr9 20186191 G-A Homo INTERGENIC
SBS Chr10 11055914 C-A Homo INTERGENIC
SBS Chr10 15040061 C-T Hetero INTERGENIC
SBS Chr10 20367545 C-G Homo INTERGENIC
SBS Chr10 21507847 T-G Homo INTERGENIC
SBS Chr10 22805226 T-A Hetero INTERGENIC
SBS Chr11 3622839 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake11g050000
SBS Chr11 12489652 T-C Hetero INTERGENIC
SBS Chr11 24807073 T-A Homo INTERGENIC
SBS Chr11 28712918 G-A Hetero INTERGENIC
SBS Chr12 2888466 C-T Homo INTERGENIC
SBS Chr12 6503478 G-T Homo INTRON
SBS Chr12 12880254 C-T Homo INTERGENIC
SBS Chr12 15153794 T-A Hetero INTERGENIC
SBS Chr12 17045557 A-T Hetero INTERGENIC

Deletions: 8

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 840161 840164 3
Deletion Chr1 9956532 9956535 3
Deletion Chr1 20789022 20789035 13
Deletion Chr12 21978119 21978120 1
Deletion Chr6 26810422 26810424 2
Deletion Chr11 27455001 27455002 1
Deletion Chr1 30510202 30510203 1
Deletion Chr4 33669529 33669531 2

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 32163140 32163143 2
Insertion Chr5 21529264 21529267 2
Insertion Chr9 7344810 7344813 2
Insertion Chr11 6420656 6420659 2
Insertion Chr11 25299446 25299448 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 7373556 7403700 OsKitaake04g037500
Inversion Chr4 7373558 7403701 OsKitaake04g037500
Inversion Chr2 7927438 7987403
Inversion Chr2 7941874 7987406

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10046027	C-T	Hetero	INTERGENIC
SBS	Chr1	12855712	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr1	33352127	C-T	Hetero	UTR_5_PRIME
SBS	Chr2	8187610	C-T	Hetero	INTERGENIC
SBS	Chr2	34537176	A-G	Hetero	INTERGENIC
SBS	Chr3	14637200	C-T	Homo	INTERGENIC
SBS	Chr3	22657929	C-G	Hetero	INTERGENIC
SBS	Chr3	25915509	G-A	Hetero	INTERGENIC
SBS	Chr3	36476661	G-A	Homo	INTRON
SBS	Chr3	37415060	G-T	Hetero	INTERGENIC
SBS	Chr4	36343556	A-G	Homo	INTERGENIC
SBS	Chr5	5701281	C-T	Homo	INTERGENIC
SBS	Chr5	14883906	C-T	Hetero	INTERGENIC
SBS	Chr5	15392746	T-A	Hetero	INTERGENIC
SBS	Chr6	13498652	A-G	Hetero	INTERGENIC
SBS	Chr6	14815213	G-A	Hetero	INTERGENIC
SBS	Chr6	16966921	T-G	Homo	INTRON
SBS	Chr7	9263403	C-T	Homo	INTERGENIC
SBS	Chr7	10379762	G-T	Hetero	INTERGENIC
SBS	Chr7	14458653	T-C	Hetero	INTERGENIC
SBS	Chr7	14458819	T-A	Hetero	INTERGENIC
SBS	Chr7	16861694	C-T	Hetero	INTERGENIC
SBS	Chr9	680597	C-T	Hetero	INTERGENIC
SBS	Chr9	822946	T-A	Hetero	UTR_3_PRIME
SBS	Chr9	2527794	T-A	Hetero	INTERGENIC
SBS	Chr9	20186191	G-A	Homo	INTERGENIC
SBS	Chr10	11055914	C-A	Homo	INTERGENIC
SBS	Chr10	15040061	C-T	Hetero	INTERGENIC
SBS	Chr10	20367545	C-G	Homo	INTERGENIC
SBS	Chr10	21507847	T-G	Homo	INTERGENIC
SBS	Chr10	22805226	T-A	Hetero	INTERGENIC
SBS	Chr11	3622839	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g050000
SBS	Chr11	12489652	T-C	Hetero	INTERGENIC
SBS	Chr11	24807073	T-A	Homo	INTERGENIC
SBS	Chr11	28712918	G-A	Hetero	INTERGENIC
SBS	Chr12	2888466	C-T	Homo	INTERGENIC
SBS	Chr12	6503478	G-T	Homo	INTRON
SBS	Chr12	12880254	C-T	Homo	INTERGENIC
SBS	Chr12	15153794	T-A	Hetero	INTERGENIC
SBS	Chr12	17045557	A-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	840161	840164	3
Deletion	Chr1	9956532	9956535	3
Deletion	Chr1	20789022	20789035	13
Deletion	Chr12	21978119	21978120	1
Deletion	Chr6	26810422	26810424	2
Deletion	Chr11	27455001	27455002	1
Deletion	Chr1	30510202	30510203	1
Deletion	Chr4	33669529	33669531	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	7373556	7403700	OsKitaake04g037500
Inversion	Chr4	7373558	7403701	OsKitaake04g037500
Inversion	Chr2	7927438	7987403
Inversion	Chr2	7941874	7987406

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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