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Mutant Information

Mutant Name	FN1280-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1280-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: 38

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 6073025 C-G Homo SYNONYMOUS_CODING
SBS Chr1 15072919 A-T,G Homo INTERGENIC
SBS Chr1 18451732 C-T Homo INTERGENIC
SBS Chr1 18850080 G-A Homo INTERGENIC
SBS Chr1 40686268 C-T Homo INTERGENIC
SBS Chr2 4776564 G-T Hetero INTERGENIC
SBS Chr2 9711233 A-G Hetero INTERGENIC
SBS Chr2 15201545 C-T Homo INTERGENIC
SBS Chr3 4946004 A-T Homo NON_SYNONYMOUS_CODING OsKitaake03g071200
SBS Chr3 6939514 G-A Homo INTRON
SBS Chr3 21503472 C-A Homo INTERGENIC
SBS Chr3 28513640 G-T Hetero INTERGENIC
SBS Chr3 29311439 C-T Hetero INTERGENIC
SBS Chr4 2151949 G-T Homo INTERGENIC
SBS Chr4 2199048 G-A Homo INTERGENIC
SBS Chr4 3283180 A-C Hetero INTERGENIC
SBS Chr4 11620544 G-A Hetero INTERGENIC
SBS Chr4 17127295 C-T Hetero INTERGENIC
SBS Chr4 24045038 C-A Hetero INTERGENIC
SBS Chr5 19238770 A-G Hetero INTERGENIC
SBS Chr6 4702826 T-A Homo INTERGENIC
SBS Chr6 6468104 T-C Homo INTERGENIC
SBS Chr6 9265686 A-G Homo INTERGENIC
SBS Chr6 13870059 C-T Homo INTERGENIC
SBS Chr6 20745524 C-A Homo INTERGENIC
SBS Chr7 9263403 C-T Homo INTERGENIC
SBS Chr7 14006436 T-C Hetero INTRON
SBS Chr8 6105252 C-G Hetero INTERGENIC
SBS Chr8 9614487 C-G Hetero INTERGENIC
SBS Chr8 24481256 A-T Hetero INTERGENIC
SBS Chr9 10489499 T-C Homo INTERGENIC
SBS Chr10 21679273 T-C Hetero INTERGENIC
SBS Chr11 8349368 G-A Homo INTERGENIC
SBS Chr11 13768876 G-A Homo INTERGENIC
SBS Chr11 28721948 G-A Hetero INTERGENIC
SBS Chr12 1593554 C-T Homo INTERGENIC
SBS Chr12 6098065 A-G Hetero INTERGENIC
SBS Chr12 6121311 T-G Hetero INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 7147191 7147194 3 OsKitaake06g092100
Deletion Chr11 12620086 12620091 5
Deletion Chr6 13648260 13648266 6
Deletion Chr11 13827376 13827378 2
Deletion Chr9 14589319 14589321 2
Deletion Chr5 15090001 15099000 8999 OsKitaake05g115100
Deletion Chr11 15185678 15185682 4
Deletion Chr1 16999120 16999122 2
Deletion Chr3 18304915 18304916 1
Deletion Chr7 25839820 25839825 5
Deletion Chr7 25848251 25848252 1
Deletion Chr7 26339817 26339823 6 OsKitaake07g242400
Deletion Chr1 30138576 30138578 2
Deletion Chr2 34754348 34754357 9
Deletion Chr1 41315613 41315614 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr5 15089942 15346817
Inversion Chr5 15098986 15346831
Inversion Chr5 28529048 28589664
Inversion Chr5 28529058 28589673

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr2 35212267 Chr1 25643561 OsKitaake01g249000
Translocation Chr2 35212271 Chr1 25605335 OsKitaake01g248600

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	6073025	C-G	Homo	SYNONYMOUS_CODING
SBS	Chr1	15072919	A-T,G	Homo	INTERGENIC
SBS	Chr1	18451732	C-T	Homo	INTERGENIC
SBS	Chr1	18850080	G-A	Homo	INTERGENIC
SBS	Chr1	40686268	C-T	Homo	INTERGENIC
SBS	Chr2	4776564	G-T	Hetero	INTERGENIC
SBS	Chr2	9711233	A-G	Hetero	INTERGENIC
SBS	Chr2	15201545	C-T	Homo	INTERGENIC
SBS	Chr3	4946004	A-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake03g071200
SBS	Chr3	6939514	G-A	Homo	INTRON
SBS	Chr3	21503472	C-A	Homo	INTERGENIC
SBS	Chr3	28513640	G-T	Hetero	INTERGENIC
SBS	Chr3	29311439	C-T	Hetero	INTERGENIC
SBS	Chr4	2151949	G-T	Homo	INTERGENIC
SBS	Chr4	2199048	G-A	Homo	INTERGENIC
SBS	Chr4	3283180	A-C	Hetero	INTERGENIC
SBS	Chr4	11620544	G-A	Hetero	INTERGENIC
SBS	Chr4	17127295	C-T	Hetero	INTERGENIC
SBS	Chr4	24045038	C-A	Hetero	INTERGENIC
SBS	Chr5	19238770	A-G	Hetero	INTERGENIC
SBS	Chr6	4702826	T-A	Homo	INTERGENIC
SBS	Chr6	6468104	T-C	Homo	INTERGENIC
SBS	Chr6	9265686	A-G	Homo	INTERGENIC
SBS	Chr6	13870059	C-T	Homo	INTERGENIC
SBS	Chr6	20745524	C-A	Homo	INTERGENIC
SBS	Chr7	9263403	C-T	Homo	INTERGENIC
SBS	Chr7	14006436	T-C	Hetero	INTRON
SBS	Chr8	6105252	C-G	Hetero	INTERGENIC
SBS	Chr8	9614487	C-G	Hetero	INTERGENIC
SBS	Chr8	24481256	A-T	Hetero	INTERGENIC
SBS	Chr9	10489499	T-C	Homo	INTERGENIC
SBS	Chr10	21679273	T-C	Hetero	INTERGENIC
SBS	Chr11	8349368	G-A	Homo	INTERGENIC
SBS	Chr11	13768876	G-A	Homo	INTERGENIC
SBS	Chr11	28721948	G-A	Hetero	INTERGENIC
SBS	Chr12	1593554	C-T	Homo	INTERGENIC
SBS	Chr12	6098065	A-G	Hetero	INTERGENIC
SBS	Chr12	6121311	T-G	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	7147191	7147194	3	OsKitaake06g092100
Deletion	Chr11	12620086	12620091	5
Deletion	Chr6	13648260	13648266	6
Deletion	Chr11	13827376	13827378	2
Deletion	Chr9	14589319	14589321	2
Deletion	Chr5	15090001	15099000	8999	OsKitaake05g115100
Deletion	Chr11	15185678	15185682	4
Deletion	Chr1	16999120	16999122	2
Deletion	Chr3	18304915	18304916	1
Deletion	Chr7	25839820	25839825	5
Deletion	Chr7	25848251	25848252	1
Deletion	Chr7	26339817	26339823	6	OsKitaake07g242400
Deletion	Chr1	30138576	30138578	2
Deletion	Chr2	34754348	34754357	9
Deletion	Chr1	41315613	41315614	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	15089942	15346817
Inversion	Chr5	15098986	15346831
Inversion	Chr5	28529048	28589664
Inversion	Chr5	28529058	28589673

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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

Position 1

Position 2

Number of Genes

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes