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Mutant Information

Mutant Name	FN1313-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1313-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: 28

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 11951229 T-C Homo INTERGENIC
SBS Chr1 14110112 C-T Hetero INTERGENIC
SBS Chr1 17941762 G-A Hetero INTERGENIC
SBS Chr1 21189536 T-G Hetero INTERGENIC
SBS Chr1 42554712 T-C Hetero INTRON
SBS Chr2 21105093 A-T Hetero UTR_3_PRIME
SBS Chr3 29360358 G-A Hetero INTRON
SBS Chr4 573147 T-A Hetero INTRON
SBS Chr4 7378644 A-C Hetero NON_SYNONYMOUS_CODING OsKitaake04g037500
SBS Chr4 15921165 C-T Hetero INTERGENIC
SBS Chr4 29847388 G-A Hetero INTERGENIC
SBS Chr4 35002192 C-A Hetero INTERGENIC
SBS Chr5 1634798 T-G Hetero INTRON
SBS Chr5 23434491 C-T Homo NON_SYNONYMOUS_CODING OsKitaake05g196300
SBS Chr6 27374838 T-G Hetero NON_SYNONYMOUS_CODING OsKitaake06g246900
SBS Chr8 3852574 C-A Hetero INTERGENIC
SBS Chr8 3955324 C-A Hetero INTERGENIC
SBS Chr8 6953197 C-A Hetero INTERGENIC
SBS Chr8 11186990 C-T Hetero INTERGENIC
SBS Chr8 21296115 G-C Homo INTERGENIC
SBS Chr9 10974733 G-A Homo INTERGENIC
SBS Chr9 17111901 C-T Hetero INTERGENIC
SBS Chr10 10629154 C-T Hetero INTERGENIC
SBS Chr10 12891054 G-T Hetero INTERGENIC
SBS Chr11 21324924 A-T Hetero INTRON
SBS Chr11 24100059 G-C Hetero INTERGENIC
SBS Chr12 1528261 G-A Homo INTERGENIC
SBS Chr12 14089220 G-A Hetero INTERGENIC

Deletions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 452383 452384 1
Deletion Chr5 1468235 1468236 1
Deletion Chr6 4373763 4373764 1 OsKitaake06g060200
Deletion Chr9 7824178 7824187 9
Deletion Chr3 13857042 13857043 1
Deletion Chr6 16040043 16040044 1 OsKitaake06g154300
Deletion Chr9 20828694 20828697 3
Deletion Chr11 23661001 23671000 9999 2
Deletion Chr7 24751761 24751771 10
Deletion Chr1 36186158 36186175 17
Deletion Chr1 39411362 39411364 2

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 8294512 8294515 2
Insertion Chr6 16647037 16647041 3

Inversions: 6

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr12 7139150 7522321 2
Inversion Chr12 7139158 7522331 2
Inversion Chr1 15483567 15852435
Inversion Chr1 15483612 15852439
Inversion Chr11 23660591 24099699 OsKitaake11g189100
Inversion Chr11 23670766 24099705 OsKitaake11g189300

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr5 6145312 Chr1 16541396 OsKitaake05g063801

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	11951229	T-C	Homo	INTERGENIC
SBS	Chr1	14110112	C-T	Hetero	INTERGENIC
SBS	Chr1	17941762	G-A	Hetero	INTERGENIC
SBS	Chr1	21189536	T-G	Hetero	INTERGENIC
SBS	Chr1	42554712	T-C	Hetero	INTRON
SBS	Chr2	21105093	A-T	Hetero	UTR_3_PRIME
SBS	Chr3	29360358	G-A	Hetero	INTRON
SBS	Chr4	573147	T-A	Hetero	INTRON
SBS	Chr4	7378644	A-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g037500
SBS	Chr4	15921165	C-T	Hetero	INTERGENIC
SBS	Chr4	29847388	G-A	Hetero	INTERGENIC
SBS	Chr4	35002192	C-A	Hetero	INTERGENIC
SBS	Chr5	1634798	T-G	Hetero	INTRON
SBS	Chr5	23434491	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake05g196300
SBS	Chr6	27374838	T-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g246900
SBS	Chr8	3852574	C-A	Hetero	INTERGENIC
SBS	Chr8	3955324	C-A	Hetero	INTERGENIC
SBS	Chr8	6953197	C-A	Hetero	INTERGENIC
SBS	Chr8	11186990	C-T	Hetero	INTERGENIC
SBS	Chr8	21296115	G-C	Homo	INTERGENIC
SBS	Chr9	10974733	G-A	Homo	INTERGENIC
SBS	Chr9	17111901	C-T	Hetero	INTERGENIC
SBS	Chr10	10629154	C-T	Hetero	INTERGENIC
SBS	Chr10	12891054	G-T	Hetero	INTERGENIC
SBS	Chr11	21324924	A-T	Hetero	INTRON
SBS	Chr11	24100059	G-C	Hetero	INTERGENIC
SBS	Chr12	1528261	G-A	Homo	INTERGENIC
SBS	Chr12	14089220	G-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	452383	452384	1
Deletion	Chr5	1468235	1468236	1
Deletion	Chr6	4373763	4373764	1	OsKitaake06g060200
Deletion	Chr9	7824178	7824187	9
Deletion	Chr3	13857042	13857043	1
Deletion	Chr6	16040043	16040044	1	OsKitaake06g154300
Deletion	Chr9	20828694	20828697	3
Deletion	Chr11	23661001	23671000	9999	2
Deletion	Chr7	24751761	24751771	10
Deletion	Chr1	36186158	36186175	17
Deletion	Chr1	39411362	39411364	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	7139150	7522321	2
Inversion	Chr12	7139158	7522331	2
Inversion	Chr1	15483567	15852435
Inversion	Chr1	15483612	15852439
Inversion	Chr11	23660591	24099699	OsKitaake11g189100
Inversion	Chr11	23670766	24099705	OsKitaake11g189300

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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