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Mutant Information

Mutant Name	FN2278-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2278-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: 31

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 4044970 A-T Hetero INTERGENIC
SBS Chr1 24888037 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake01g240400
SBS Chr1 27026419 A-G Hetero INTERGENIC
SBS Chr2 4687505 C-G Hetero INTERGENIC
SBS Chr2 27443056 A-G Hetero INTERGENIC
SBS Chr3 13222735 C-T Homo INTERGENIC
SBS Chr3 15312993 A-G Homo INTRON
SBS Chr3 25911314 A-T Homo INTERGENIC
SBS Chr3 27936160 A-G Homo INTERGENIC
SBS Chr4 1531222 T-C Hetero UTR_5_PRIME
SBS Chr4 10391624 A-C Hetero INTERGENIC
SBS Chr4 24026912 G-A Homo INTERGENIC
SBS Chr4 27103828 A-T Hetero INTERGENIC
SBS Chr5 7542339 G-T Hetero SYNONYMOUS_CODING
SBS Chr5 17561647 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake05g134600
SBS Chr5 20963827 T-G Hetero INTERGENIC
SBS Chr6 6373098 G-A Hetero INTRON
SBS Chr6 29203623 T-C Homo INTRON
SBS Chr7 20697280 C-A Hetero INTRON
SBS Chr7 23135326 G-A Homo INTERGENIC
SBS Chr8 4430633 C-A Homo NON_SYNONYMOUS_CODING OsKitaake08g050300
SBS Chr8 7392145 C-T Homo INTERGENIC
SBS Chr8 16694778 G-T Hetero INTERGENIC
SBS Chr9 9267047 T-C Hetero INTERGENIC
SBS Chr9 10057291 C-A Hetero INTRON
SBS Chr9 11957757 G-C Hetero INTERGENIC
SBS Chr10 11169257 G-A Homo INTERGENIC
SBS Chr10 20087657 G-A Hetero INTERGENIC
SBS Chr11 2017915 T-C Hetero INTERGENIC
SBS Chr11 22972713 T-A Hetero INTRON
SBS Chr11 26749616 G-T Hetero INTERGENIC

Deletions: 20

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 454610 454611 1
Deletion Chr7 2462480 2462489 9 OsKitaake07g033100
Deletion Chr10 4234258 4234270 12
Deletion Chr5 5394579 5394580 1
Deletion Chr1 7661694 7661698 4
Deletion Chr7 8575085 8575087 2
Deletion Chr7 9287628 9287637 9
Deletion Chr8 11013104 11013108 4
Deletion Chr3 11111658 11111661 3
Deletion Chr7 11668704 11668712 8
Deletion Chr9 14829227 14829247 20
Deletion Chr7 15608392 15608404 12
Deletion Chr6 18304980 18304981 1
Deletion Chr2 20474637 20474648 11
Deletion Chr5 21320119 21320130 11
Deletion Chr7 24631718 24631725 7
Deletion Chr12 24894001 24916000 21999 2
Deletion Chr1 31472339 31472340 1
Deletion Chr3 34312706 34312710 4
Deletion Chr3 34704292 34704294 2

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 27544512 27544515 2
Insertion Chr4 34336476 34336479 2

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr3 8948906 Chr1 3895089 2
Translocation Chr6 26563614 Chr3 34130458

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4044970	A-T	Hetero	INTERGENIC
SBS	Chr1	24888037	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g240400
SBS	Chr1	27026419	A-G	Hetero	INTERGENIC
SBS	Chr2	4687505	C-G	Hetero	INTERGENIC
SBS	Chr2	27443056	A-G	Hetero	INTERGENIC
SBS	Chr3	13222735	C-T	Homo	INTERGENIC
SBS	Chr3	15312993	A-G	Homo	INTRON
SBS	Chr3	25911314	A-T	Homo	INTERGENIC
SBS	Chr3	27936160	A-G	Homo	INTERGENIC
SBS	Chr4	1531222	T-C	Hetero	UTR_5_PRIME
SBS	Chr4	10391624	A-C	Hetero	INTERGENIC
SBS	Chr4	24026912	G-A	Homo	INTERGENIC
SBS	Chr4	27103828	A-T	Hetero	INTERGENIC
SBS	Chr5	7542339	G-T	Hetero	SYNONYMOUS_CODING
SBS	Chr5	17561647	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g134600
SBS	Chr5	20963827	T-G	Hetero	INTERGENIC
SBS	Chr6	6373098	G-A	Hetero	INTRON
SBS	Chr6	29203623	T-C	Homo	INTRON
SBS	Chr7	20697280	C-A	Hetero	INTRON
SBS	Chr7	23135326	G-A	Homo	INTERGENIC
SBS	Chr8	4430633	C-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake08g050300
SBS	Chr8	7392145	C-T	Homo	INTERGENIC
SBS	Chr8	16694778	G-T	Hetero	INTERGENIC
SBS	Chr9	9267047	T-C	Hetero	INTERGENIC
SBS	Chr9	10057291	C-A	Hetero	INTRON
SBS	Chr9	11957757	G-C	Hetero	INTERGENIC
SBS	Chr10	11169257	G-A	Homo	INTERGENIC
SBS	Chr10	20087657	G-A	Hetero	INTERGENIC
SBS	Chr11	2017915	T-C	Hetero	INTERGENIC
SBS	Chr11	22972713	T-A	Hetero	INTRON
SBS	Chr11	26749616	G-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	454610	454611	1
Deletion	Chr7	2462480	2462489	9	OsKitaake07g033100
Deletion	Chr10	4234258	4234270	12
Deletion	Chr5	5394579	5394580	1
Deletion	Chr1	7661694	7661698	4
Deletion	Chr7	8575085	8575087	2
Deletion	Chr7	9287628	9287637	9
Deletion	Chr8	11013104	11013108	4
Deletion	Chr3	11111658	11111661	3
Deletion	Chr7	11668704	11668712	8
Deletion	Chr9	14829227	14829247	20
Deletion	Chr7	15608392	15608404	12
Deletion	Chr6	18304980	18304981	1
Deletion	Chr2	20474637	20474648	11
Deletion	Chr5	21320119	21320130	11
Deletion	Chr7	24631718	24631725	7
Deletion	Chr12	24894001	24916000	21999	2
Deletion	Chr1	31472339	31472340	1
Deletion	Chr3	34312706	34312710	4
Deletion	Chr3	34704292	34704294	2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr3	8948906	Chr1	3895089	2
Translocation	Chr6	26563614	Chr3	34130458

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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

Chromosome

Position 2

Number of Genes