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Mutant Information

Mutant Name	FN1256-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1256-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) = Low (Between 25% and 74%) TO:0000430 (Germination Rate) = 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 Chr2 4389249 T-A Homo UTR_5_PRIME
SBS Chr2 14202264 T-G Homo INTERGENIC
SBS Chr2 18028681 C-T Homo INTERGENIC
SBS Chr2 19074225 C-T Homo INTERGENIC
SBS Chr2 32399092 C-T Hetero INTERGENIC
SBS Chr3 8414599 G-T Hetero INTERGENIC
SBS Chr3 36670912 G-A Hetero INTERGENIC
SBS Chr4 3713366 A-G Homo INTERGENIC
SBS Chr4 16327447 G-A Homo INTERGENIC
SBS Chr4 26325546 C-T Hetero INTERGENIC
SBS Chr4 33274562 T-A Hetero INTERGENIC
SBS Chr5 4424522 C-T Hetero INTERGENIC
SBS Chr5 17215383 A-G Homo INTERGENIC
SBS Chr5 24662103 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake05g201100
SBS Chr5 24662106 T-A Hetero NON_SYNONYMOUS_CODING OsKitaake05g201100
SBS Chr5 28903690 G-A Hetero INTERGENIC
SBS Chr6 9265830 A-T Homo INTERGENIC
SBS Chr7 4957757 G-A Hetero INTERGENIC
SBS Chr7 6685788 T-C Hetero INTERGENIC
SBS Chr8 5525772 C-T Hetero INTERGENIC
SBS Chr8 25560111 T-C Homo UTR_3_PRIME
SBS Chr8 29021135 A-C Hetero INTERGENIC
SBS Chr9 8319042 A-C Hetero INTERGENIC
SBS Chr9 8319045 C-A Hetero INTERGENIC
SBS Chr9 10561066 T-A Hetero INTERGENIC
SBS Chr10 18838511 G-A Hetero INTERGENIC
SBS Chr11 13304433 T-G Hetero INTERGENIC
SBS Chr11 14209056 G-T Hetero INTRON
SBS Chr11 21163799 G-T Hetero INTERGENIC
SBS Chr12 554163 C-A Homo INTERGENIC
SBS Chr12 5443363 C-T Homo INTERGENIC
SBS Chr12 13889441 G-A Hetero INTERGENIC
SBS Chr12 19966915 G-A Hetero INTERGENIC
SBS Chr12 26600025 C-T Homo INTRON

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 4231454 4231580 126
Deletion Chr2 5196001 5206000 9999 OsKitaake02g071800
Deletion Chr12 7283939 7283940 1
Deletion Chr9 8245001 8310000 64999 3
Deletion Chr10 8282811 8282812 1
Deletion Chr7 14030617 14030818 201 OsKitaake07g121100
Deletion Chr2 14572353 14572354 1
Deletion Chr5 15028269 15028271 2
Deletion Chr1 18014635 18014720 85
Deletion Chr11 19250627 19250633 6
Deletion Chr4 19437001 19446000 8999 OsKitaake04g099601
Deletion Chr4 22028615 22028625 10
Deletion Chr3 27614359 27614365 6
Deletion Chr3 31886607 31886612 5
Deletion Chr2 35912871 35912872 1

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 10411307 10411313 5
Insertion Chr2 34236455 34236458 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr9 8247373 8321367
Inversion Chr9 8314550 8323274

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr2	4389249	T-A	Homo	UTR_5_PRIME
SBS	Chr2	14202264	T-G	Homo	INTERGENIC
SBS	Chr2	18028681	C-T	Homo	INTERGENIC
SBS	Chr2	19074225	C-T	Homo	INTERGENIC
SBS	Chr2	32399092	C-T	Hetero	INTERGENIC
SBS	Chr3	8414599	G-T	Hetero	INTERGENIC
SBS	Chr3	36670912	G-A	Hetero	INTERGENIC
SBS	Chr4	3713366	A-G	Homo	INTERGENIC
SBS	Chr4	16327447	G-A	Homo	INTERGENIC
SBS	Chr4	26325546	C-T	Hetero	INTERGENIC
SBS	Chr4	33274562	T-A	Hetero	INTERGENIC
SBS	Chr5	4424522	C-T	Hetero	INTERGENIC
SBS	Chr5	17215383	A-G	Homo	INTERGENIC
SBS	Chr5	24662103	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g201100
SBS	Chr5	24662106	T-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g201100
SBS	Chr5	28903690	G-A	Hetero	INTERGENIC
SBS	Chr6	9265830	A-T	Homo	INTERGENIC
SBS	Chr7	4957757	G-A	Hetero	INTERGENIC
SBS	Chr7	6685788	T-C	Hetero	INTERGENIC
SBS	Chr8	5525772	C-T	Hetero	INTERGENIC
SBS	Chr8	25560111	T-C	Homo	UTR_3_PRIME
SBS	Chr8	29021135	A-C	Hetero	INTERGENIC
SBS	Chr9	8319042	A-C	Hetero	INTERGENIC
SBS	Chr9	8319045	C-A	Hetero	INTERGENIC
SBS	Chr9	10561066	T-A	Hetero	INTERGENIC
SBS	Chr10	18838511	G-A	Hetero	INTERGENIC
SBS	Chr11	13304433	T-G	Hetero	INTERGENIC
SBS	Chr11	14209056	G-T	Hetero	INTRON
SBS	Chr11	21163799	G-T	Hetero	INTERGENIC
SBS	Chr12	554163	C-A	Homo	INTERGENIC
SBS	Chr12	5443363	C-T	Homo	INTERGENIC
SBS	Chr12	13889441	G-A	Hetero	INTERGENIC
SBS	Chr12	19966915	G-A	Hetero	INTERGENIC
SBS	Chr12	26600025	C-T	Homo	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	4231454	4231580	126
Deletion	Chr2	5196001	5206000	9999	OsKitaake02g071800
Deletion	Chr12	7283939	7283940	1
Deletion	Chr9	8245001	8310000	64999	3
Deletion	Chr10	8282811	8282812	1
Deletion	Chr7	14030617	14030818	201	OsKitaake07g121100
Deletion	Chr2	14572353	14572354	1
Deletion	Chr5	15028269	15028271	2
Deletion	Chr1	18014635	18014720	85
Deletion	Chr11	19250627	19250633	6
Deletion	Chr4	19437001	19446000	8999	OsKitaake04g099601
Deletion	Chr4	22028615	22028625	10
Deletion	Chr3	27614359	27614365	6
Deletion	Chr3	31886607	31886612	5
Deletion	Chr2	35912871	35912872	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	8247373	8321367
Inversion	Chr9	8314550	8323274

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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