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Mutant Information

Mutant Name	FN580-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN580-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 29

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1765172 C-G Homo INTERGENIC
SBS Chr1 22427006 G-A Hetero INTERGENIC
SBS Chr2 18613435 G-A Hetero INTERGENIC
SBS Chr4 2127373 A-G Hetero INTERGENIC
SBS Chr4 7701661 G-A Hetero SYNONYMOUS_CODING
SBS Chr4 19808396 T-C Hetero INTERGENIC
SBS Chr4 28107659 G-C Hetero INTERGENIC
SBS Chr4 32223511 C-T Hetero INTRON
SBS Chr5 11736186 C-G Hetero INTERGENIC
SBS Chr5 12651539 G-A Hetero INTERGENIC
SBS Chr5 20280062 T-A Hetero INTERGENIC
SBS Chr6 7592334 T-G Hetero INTERGENIC
SBS Chr6 14813416 T-A Hetero INTERGENIC
SBS Chr6 24407648 T-A Homo UTR_3_PRIME
SBS Chr6 30068368 T-C Hetero SYNONYMOUS_CODING
SBS Chr7 27018521 G-A Hetero SYNONYMOUS_CODING
SBS Chr7 28577603 T-C Hetero INTERGENIC
SBS Chr8 4177678 T-C Homo INTERGENIC
SBS Chr8 4559247 G-A Homo INTERGENIC
SBS Chr8 6843787 C-G Hetero INTERGENIC
SBS Chr8 25032658 C-T Homo INTERGENIC
SBS Chr8 25072213 C-T Homo INTERGENIC
SBS Chr8 27119201 C-A Homo UTR_3_PRIME
SBS Chr9 1400861 G-T Hetero INTERGENIC
SBS Chr10 19374865 C-A Hetero INTERGENIC
SBS Chr11 1872103 T-C Hetero INTERGENIC
SBS Chr11 11891286 C-A Hetero INTERGENIC
SBS Chr12 1864943 A-G Hetero INTERGENIC
SBS Chr12 5908359 G-A Homo INTERGENIC

Deletions: 10

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr8 76251 76265 14
Deletion Chr8 737162 737164 2 OsKitaake08g010500
Deletion Chr8 5057871 5057877 6
Deletion Chr8 6028165 6028167 2
Deletion Chr1 8097530 8097532 2
Deletion Chr7 8683538 8683539 1
Deletion Chr8 14417851 14417853 2
Deletion Chr7 24749895 24749900 5
Deletion Chr7 26003001 26035000 31999 4
Deletion Chr2 31919889 31919893 4 OsKitaake02g325600

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 43987690 43987693 2
Insertion Chr3 18234954 18234962 7
Insertion Chr10 18392210 18392212 1 OsKitaake10g130100
Insertion Chr11 5299684 5299687 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr11 2540493 2679616
Inversion Chr11 2540507 2679620

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr4 14394290 Chr1 26784385

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1765172	C-G	Homo	INTERGENIC
SBS	Chr1	22427006	G-A	Hetero	INTERGENIC
SBS	Chr2	18613435	G-A	Hetero	INTERGENIC
SBS	Chr4	2127373	A-G	Hetero	INTERGENIC
SBS	Chr4	7701661	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr4	19808396	T-C	Hetero	INTERGENIC
SBS	Chr4	28107659	G-C	Hetero	INTERGENIC
SBS	Chr4	32223511	C-T	Hetero	INTRON
SBS	Chr5	11736186	C-G	Hetero	INTERGENIC
SBS	Chr5	12651539	G-A	Hetero	INTERGENIC
SBS	Chr5	20280062	T-A	Hetero	INTERGENIC
SBS	Chr6	7592334	T-G	Hetero	INTERGENIC
SBS	Chr6	14813416	T-A	Hetero	INTERGENIC
SBS	Chr6	24407648	T-A	Homo	UTR_3_PRIME
SBS	Chr6	30068368	T-C	Hetero	SYNONYMOUS_CODING
SBS	Chr7	27018521	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr7	28577603	T-C	Hetero	INTERGENIC
SBS	Chr8	4177678	T-C	Homo	INTERGENIC
SBS	Chr8	4559247	G-A	Homo	INTERGENIC
SBS	Chr8	6843787	C-G	Hetero	INTERGENIC
SBS	Chr8	25032658	C-T	Homo	INTERGENIC
SBS	Chr8	25072213	C-T	Homo	INTERGENIC
SBS	Chr8	27119201	C-A	Homo	UTR_3_PRIME
SBS	Chr9	1400861	G-T	Hetero	INTERGENIC
SBS	Chr10	19374865	C-A	Hetero	INTERGENIC
SBS	Chr11	1872103	T-C	Hetero	INTERGENIC
SBS	Chr11	11891286	C-A	Hetero	INTERGENIC
SBS	Chr12	1864943	A-G	Hetero	INTERGENIC
SBS	Chr12	5908359	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr8	76251	76265	14
Deletion	Chr8	737162	737164	2	OsKitaake08g010500
Deletion	Chr8	5057871	5057877	6
Deletion	Chr8	6028165	6028167	2
Deletion	Chr1	8097530	8097532	2
Deletion	Chr7	8683538	8683539	1
Deletion	Chr8	14417851	14417853	2
Deletion	Chr7	24749895	24749900	5
Deletion	Chr7	26003001	26035000	31999	4
Deletion	Chr2	31919889	31919893	4	OsKitaake02g325600

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	2540493	2679616
Inversion	Chr11	2540507	2679620

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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