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Mutant Information

Mutant Name	FN1678-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1678-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	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: 13

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 16214813 A-T Homo INTERGENIC
SBS Chr1 37625136 T-C Hetero INTRON
SBS Chr1 40877738 C-T Hetero INTERGENIC
SBS Chr2 5692045 T-C Hetero INTERGENIC
SBS Chr2 13388954 C-T Homo INTERGENIC
SBS Chr4 7756136 G-A Hetero INTRON
SBS Chr5 8985148 C-A Hetero INTERGENIC
SBS Chr7 11975660 C-G Hetero INTERGENIC
SBS Chr7 14383472 G-C Hetero INTERGENIC
SBS Chr7 21429391 A-C Hetero INTRON
SBS Chr8 11779227 T-C Hetero INTERGENIC
SBS Chr9 6705130 G-A Homo INTERGENIC
SBS Chr11 28068960 C-T Hetero UTR_3_PRIME

Deletions: 10

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr12 3794420 3794428 8
Deletion Chr4 6252001 6265000 12999 OsKitaake04g031200
Deletion Chr9 9453621 9453626 5
Deletion Chr5 12424107 12424108 1
Deletion Chr3 13223813 13223828 15
Deletion Chr9 18298389 18298393 4
Deletion Chr8 19080470 19080472 2
Deletion Chr12 25549062 25549067 5
Deletion Chr12 27023519 27023840 321
Deletion Chr3 34690387 34690395 8

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr6 29136797 29136800 2
Insertion Chr9 4745786 4745788 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 20406632 20463480 2
Inversion Chr10 20406650 20463487 2

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 14234408 Chr6 15331950 2
Translocation Chr9 14240322 Chr6 15331945 2
Translocation Chr12 18298546 Chr1 43095748 OsKitaake01g475800
Translocation Chr12 18298771 Chr1 43096241 OsKitaake01g475800

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	16214813	A-T	Homo	INTERGENIC
SBS	Chr1	37625136	T-C	Hetero	INTRON
SBS	Chr1	40877738	C-T	Hetero	INTERGENIC
SBS	Chr2	5692045	T-C	Hetero	INTERGENIC
SBS	Chr2	13388954	C-T	Homo	INTERGENIC
SBS	Chr4	7756136	G-A	Hetero	INTRON
SBS	Chr5	8985148	C-A	Hetero	INTERGENIC
SBS	Chr7	11975660	C-G	Hetero	INTERGENIC
SBS	Chr7	14383472	G-C	Hetero	INTERGENIC
SBS	Chr7	21429391	A-C	Hetero	INTRON
SBS	Chr8	11779227	T-C	Hetero	INTERGENIC
SBS	Chr9	6705130	G-A	Homo	INTERGENIC
SBS	Chr11	28068960	C-T	Hetero	UTR_3_PRIME

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr12	3794420	3794428	8
Deletion	Chr4	6252001	6265000	12999	OsKitaake04g031200
Deletion	Chr9	9453621	9453626	5
Deletion	Chr5	12424107	12424108	1
Deletion	Chr3	13223813	13223828	15
Deletion	Chr9	18298389	18298393	4
Deletion	Chr8	19080470	19080472	2
Deletion	Chr12	25549062	25549067	5
Deletion	Chr12	27023519	27023840	321
Deletion	Chr3	34690387	34690395	8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	20406632	20463480	2
Inversion	Chr10	20406650	20463487	2

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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