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Mutant Information

Mutant Name	FN1677-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1677-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: 17

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 15336860 G-A Hetero INTERGENIC
SBS Chr1 25145976 T-C Hetero INTRON
SBS Chr2 22275969 C-T Hetero INTERGENIC
SBS Chr3 10070714 C-T Homo INTERGENIC
SBS Chr3 27600967 A-T Homo INTERGENIC
SBS Chr3 27600968 A-T Homo INTERGENIC
SBS Chr5 18309115 C-T Hetero INTERGENIC
SBS Chr5 24055238 T-C Hetero INTRON
SBS Chr6 15799796 G-A Homo INTERGENIC
SBS Chr7 1227485 G-A Hetero INTERGENIC
SBS Chr8 21986338 A-G Hetero INTERGENIC
SBS Chr9 6499349 A-C Homo INTERGENIC
SBS Chr9 20145333 T-C Hetero INTRON
SBS Chr9 22715386 G-A Hetero SYNONYMOUS_CODING
SBS Chr10 5590125 A-T Hetero INTERGENIC
SBS Chr10 14605049 G-C Hetero INTERGENIC
SBS Chr11 14020205 C-A Hetero INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr8 2794759 2795089 330
Deletion Chr5 5387228 5387230 2
Deletion Chr10 5938001 5957000 18999 OsKitaake10g040700
Deletion Chr7 7693562 7693566 4
Deletion Chr8 9517532 9517533 1
Deletion Chr12 9876659 9876805 146
Deletion Chr7 13726001 13730000 3999
Deletion Chr5 17229074 17229475 401
Deletion Chr9 18560001 18598000 37999 5
Deletion Chr9 18646033 18646035 2
Deletion Chr4 19701483 19701491 8
Deletion Chr2 20691705 20691789 84
Deletion Chr3 30010419 30010420 1

Insertions: 1

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 39814436 39814438 1

Inversions: 5

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr11 8402658 8864199 OsKitaake11g095200
Inversion Chr11 8402664 8864202 OsKitaake11g095200
Inversion Chr8 8954161 8954742
Inversion Chr2 35109013 35502147 OsKitaake02g367300
Inversion Chr2 35109029 35502156 OsKitaake02g367300

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr2 20702655 Chr1 23925921
Translocation Chr2 20703122 Chr1 23925918

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15336860	G-A	Hetero	INTERGENIC
SBS	Chr1	25145976	T-C	Hetero	INTRON
SBS	Chr2	22275969	C-T	Hetero	INTERGENIC
SBS	Chr3	10070714	C-T	Homo	INTERGENIC
SBS	Chr3	27600967	A-T	Homo	INTERGENIC
SBS	Chr3	27600968	A-T	Homo	INTERGENIC
SBS	Chr5	18309115	C-T	Hetero	INTERGENIC
SBS	Chr5	24055238	T-C	Hetero	INTRON
SBS	Chr6	15799796	G-A	Homo	INTERGENIC
SBS	Chr7	1227485	G-A	Hetero	INTERGENIC
SBS	Chr8	21986338	A-G	Hetero	INTERGENIC
SBS	Chr9	6499349	A-C	Homo	INTERGENIC
SBS	Chr9	20145333	T-C	Hetero	INTRON
SBS	Chr9	22715386	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr10	5590125	A-T	Hetero	INTERGENIC
SBS	Chr10	14605049	G-C	Hetero	INTERGENIC
SBS	Chr11	14020205	C-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr8	2794759	2795089	330
Deletion	Chr5	5387228	5387230	2
Deletion	Chr10	5938001	5957000	18999	OsKitaake10g040700
Deletion	Chr7	7693562	7693566	4
Deletion	Chr8	9517532	9517533	1
Deletion	Chr12	9876659	9876805	146
Deletion	Chr7	13726001	13730000	3999
Deletion	Chr5	17229074	17229475	401
Deletion	Chr9	18560001	18598000	37999	5
Deletion	Chr9	18646033	18646035	2
Deletion	Chr4	19701483	19701491	8
Deletion	Chr2	20691705	20691789	84
Deletion	Chr3	30010419	30010420	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	8402658	8864199	OsKitaake11g095200
Inversion	Chr11	8402664	8864202	OsKitaake11g095200
Inversion	Chr8	8954161	8954742
Inversion	Chr2	35109013	35502147	OsKitaake02g367300
Inversion	Chr2	35109029	35502156	OsKitaake02g367300

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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