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Mutant Information

Mutant Name	FN1279-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1279-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Normal (Between 75% and 125%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 34

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1434964 C-A Homo INTERGENIC
SBS Chr1 13362667 A-G Homo INTERGENIC
SBS Chr1 32786157 C-T Homo INTERGENIC
SBS Chr3 1598825 G-T Homo INTERGENIC
SBS Chr3 18451991 A-T Hetero INTERGENIC
SBS Chr3 33053257 G-A Hetero INTERGENIC
SBS Chr3 34503803 C-T Hetero INTERGENIC
SBS Chr4 6512474 C-T Hetero STOP_GAINED OsKitaake04g033000
SBS Chr4 21922123 C-G Homo NON_SYNONYMOUS_CODING OsKitaake04g127000
SBS Chr5 12208052 C-A Homo INTERGENIC
SBS Chr5 15301598 G-T Homo INTERGENIC
SBS Chr5 21349481 G-T Hetero INTERGENIC
SBS Chr6 2663243 C-T Homo INTERGENIC
SBS Chr6 4144394 T-A Homo INTERGENIC
SBS Chr6 11929836 T-G Hetero NON_SYNONYMOUS_CODING OsKitaake06g129600
SBS Chr6 12127318 C-G Hetero INTERGENIC
SBS Chr6 20069651 G-A Hetero INTERGENIC
SBS Chr6 20270592 T-C Hetero INTERGENIC
SBS Chr6 21924663 C-T Homo INTRON
SBS Chr7 28761862 C-T Homo INTERGENIC
SBS Chr8 24427014 G-A Hetero INTERGENIC
SBS Chr9 3539266 A-G Hetero UTR_3_PRIME
SBS Chr9 15567864 T-A Hetero INTERGENIC
SBS Chr10 11204787 G-T Homo INTERGENIC
SBS Chr10 22488999 C-T Hetero INTERGENIC
SBS Chr11 8511997 C-T Hetero INTERGENIC
SBS Chr11 14906347 C-T Hetero UTR_5_PRIME
SBS Chr11 14992731 C-G Hetero INTERGENIC
SBS Chr11 24264368 G-C Homo INTERGENIC
SBS Chr12 12910404 A-T Homo INTERGENIC
SBS Chr12 16069741 T-C Homo INTERGENIC
SBS Chr12 16177216 C-T Hetero INTERGENIC
SBS Chr12 17372900 C-A Homo INTERGENIC
SBS Chr12 24361203 G-A Homo INTERGENIC

Deletions: 9

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 6770631 6770632 1
Deletion Chr2 7542715 7542718 3
Deletion Chr1 10368988 10368991 3
Deletion Chr10 13604077 13604080 3
Deletion Chr2 17006334 17006337 3
Deletion Chr10 17723001 17769000 45999 7
Deletion Chr1 18781034 18781038 4
Deletion Chr2 27208521 27208526 5
Deletion Chr5 30246720 30246721 1

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 4019689 4019692 2
Insertion Chr5 20291898 20291902 3
Insertion Chr12 9941218 9941221 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1434964	C-A	Homo	INTERGENIC
SBS	Chr1	13362667	A-G	Homo	INTERGENIC
SBS	Chr1	32786157	C-T	Homo	INTERGENIC
SBS	Chr3	1598825	G-T	Homo	INTERGENIC
SBS	Chr3	18451991	A-T	Hetero	INTERGENIC
SBS	Chr3	33053257	G-A	Hetero	INTERGENIC
SBS	Chr3	34503803	C-T	Hetero	INTERGENIC
SBS	Chr4	6512474	C-T	Hetero	STOP_GAINED	OsKitaake04g033000
SBS	Chr4	21922123	C-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake04g127000
SBS	Chr5	12208052	C-A	Homo	INTERGENIC
SBS	Chr5	15301598	G-T	Homo	INTERGENIC
SBS	Chr5	21349481	G-T	Hetero	INTERGENIC
SBS	Chr6	2663243	C-T	Homo	INTERGENIC
SBS	Chr6	4144394	T-A	Homo	INTERGENIC
SBS	Chr6	11929836	T-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g129600
SBS	Chr6	12127318	C-G	Hetero	INTERGENIC
SBS	Chr6	20069651	G-A	Hetero	INTERGENIC
SBS	Chr6	20270592	T-C	Hetero	INTERGENIC
SBS	Chr6	21924663	C-T	Homo	INTRON
SBS	Chr7	28761862	C-T	Homo	INTERGENIC
SBS	Chr8	24427014	G-A	Hetero	INTERGENIC
SBS	Chr9	3539266	A-G	Hetero	UTR_3_PRIME
SBS	Chr9	15567864	T-A	Hetero	INTERGENIC
SBS	Chr10	11204787	G-T	Homo	INTERGENIC
SBS	Chr10	22488999	C-T	Hetero	INTERGENIC
SBS	Chr11	8511997	C-T	Hetero	INTERGENIC
SBS	Chr11	14906347	C-T	Hetero	UTR_5_PRIME
SBS	Chr11	14992731	C-G	Hetero	INTERGENIC
SBS	Chr11	24264368	G-C	Homo	INTERGENIC
SBS	Chr12	12910404	A-T	Homo	INTERGENIC
SBS	Chr12	16069741	T-C	Homo	INTERGENIC
SBS	Chr12	16177216	C-T	Hetero	INTERGENIC
SBS	Chr12	17372900	C-A	Homo	INTERGENIC
SBS	Chr12	24361203	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	6770631	6770632	1
Deletion	Chr2	7542715	7542718	3
Deletion	Chr1	10368988	10368991	3
Deletion	Chr10	13604077	13604080	3
Deletion	Chr2	17006334	17006337	3
Deletion	Chr10	17723001	17769000	45999	7
Deletion	Chr1	18781034	18781038	4
Deletion	Chr2	27208521	27208526	5
Deletion	Chr5	30246720	30246721	1

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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