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Mutant Information

Mutant Name	FN1534-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1534-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000346 (Tiller number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 15

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 21437879 C-T Hetero INTERGENIC
SBS Chr1 23283241 C-A Hetero INTERGENIC
SBS Chr2 18467864 G-A Homo INTERGENIC
SBS Chr2 35444590 G-T Hetero INTERGENIC
SBS Chr2 35444591 T-C Hetero INTERGENIC
SBS Chr4 22616319 A-C Homo INTERGENIC
SBS Chr4 32586501 A-G Homo SYNONYMOUS_CODING
SBS Chr6 8401242 C-T Homo INTERGENIC
SBS Chr6 8441478 C-A Hetero INTERGENIC
SBS Chr6 18284648 C-A Hetero INTERGENIC
SBS Chr7 9744149 G-A Hetero INTERGENIC
SBS Chr7 15695565 A-C Hetero INTERGENIC
SBS Chr9 5175513 C-T Hetero INTERGENIC
SBS Chr11 7098961 C-T Hetero INTERGENIC
SBS Chr12 12145607 C-A Hetero INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 20796 20797 1
Deletion Chr11 195088 195107 19
Deletion Chr4 215110 215116 6
Deletion Chr3 1320265 1320269 4
Deletion Chr2 4079216 4079219 3
Deletion Chr8 5788539 5788550 11
Deletion Chr8 10067227 10067231 4
Deletion Chr8 12033689 12033694 5
Deletion Chr9 12582772 12582783 11
Deletion Chr7 13525321 13525328 7
Deletion Chr6 25247144 25247150 6
Deletion Chr11 29340402 29340404 2
Deletion Chr5 30165667 30165668 1

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr10 8901010 8901013 2
Insertion Chr1 39814436 39814438 1
Insertion Chr2 25139969 25139971 1
Insertion Chr3 20050183 20050185 1
Insertion Chr5 30239995 30240003 7
Insertion Chr11 25162046 25162048 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 5762837 5763048
Inversion Chr6 26481694 26481809
Inversion Chr2 27067526 27395492
Inversion Chr2 27070482 27395636 OsKitaake02g270300

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr3 9995787 Chr2 27070475 2
Translocation Chr3 9995788 Chr2 27067531 OsKitaake03g136700

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	21437879	C-T	Hetero	INTERGENIC
SBS	Chr1	23283241	C-A	Hetero	INTERGENIC
SBS	Chr2	18467864	G-A	Homo	INTERGENIC
SBS	Chr2	35444590	G-T	Hetero	INTERGENIC
SBS	Chr2	35444591	T-C	Hetero	INTERGENIC
SBS	Chr4	22616319	A-C	Homo	INTERGENIC
SBS	Chr4	32586501	A-G	Homo	SYNONYMOUS_CODING
SBS	Chr6	8401242	C-T	Homo	INTERGENIC
SBS	Chr6	8441478	C-A	Hetero	INTERGENIC
SBS	Chr6	18284648	C-A	Hetero	INTERGENIC
SBS	Chr7	9744149	G-A	Hetero	INTERGENIC
SBS	Chr7	15695565	A-C	Hetero	INTERGENIC
SBS	Chr9	5175513	C-T	Hetero	INTERGENIC
SBS	Chr11	7098961	C-T	Hetero	INTERGENIC
SBS	Chr12	12145607	C-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	20796	20797	1
Deletion	Chr11	195088	195107	19
Deletion	Chr4	215110	215116	6
Deletion	Chr3	1320265	1320269	4
Deletion	Chr2	4079216	4079219	3
Deletion	Chr8	5788539	5788550	11
Deletion	Chr8	10067227	10067231	4
Deletion	Chr8	12033689	12033694	5
Deletion	Chr9	12582772	12582783	11
Deletion	Chr7	13525321	13525328	7
Deletion	Chr6	25247144	25247150	6
Deletion	Chr11	29340402	29340404	2
Deletion	Chr5	30165667	30165668	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	5762837	5763048
Inversion	Chr6	26481694	26481809
Inversion	Chr2	27067526	27395492
Inversion	Chr2	27070482	27395636	OsKitaake02g270300

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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