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Mutant Information

Mutant Name	FN1274-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1274-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: 22

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 22937178 G-C Hetero INTERGENIC
SBS Chr2 24349647 T-C Homo START_GAINED
SBS Chr3 22478762 G-A Hetero INTERGENIC
SBS Chr3 30852212 T-A Hetero INTERGENIC
SBS Chr3 31836013 C-T Hetero INTERGENIC
SBS Chr4 36545114 C-T Hetero INTERGENIC
SBS Chr5 25836886 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake05g227600
SBS Chr5 30060915 C-A Homo INTERGENIC
SBS Chr5 30060916 C-A Homo INTERGENIC
SBS Chr6 4618787 T-C Hetero INTERGENIC
SBS Chr6 6706827 C-T Hetero INTERGENIC
SBS Chr6 21906390 A-G Hetero INTERGENIC
SBS Chr6 22736740 C-T Hetero INTERGENIC
SBS Chr8 17959930 C-G Hetero INTRON
SBS Chr10 1674655 T-A Homo INTERGENIC
SBS Chr10 1674656 T-A Homo INTERGENIC
SBS Chr10 3742376 G-A Homo INTERGENIC
SBS Chr10 19225012 C-A Homo INTRON
SBS Chr11 2235279 T-C Homo INTERGENIC
SBS Chr11 13658260 A-T Hetero INTERGENIC
SBS Chr12 22461742 G-A Hetero INTERGENIC
SBS Chr12 27101900 C-G Hetero INTRON

Deletions: 9

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr12 334382 334385 3
Deletion Chr10 2852681 2852690 9
Deletion Chr7 6517702 6517704 2
Deletion Chr3 8921291 8921295 4
Deletion Chr1 11741747 11741748 1
Deletion Chr4 12745806 12745807 1
Deletion Chr5 13491876 13491880 4
Deletion Chr2 25251086 25251098 12
Deletion Chr4 36732308 36732316 8

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 28024199 28024207 7
Insertion Chr4 23126672 23126676 3
Insertion Chr11 24282596 24282599 2

Inversions: 3

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 1703561 2103513 OsKitaake02g026800
Inversion Chr2 1703572 2103515 OsKitaake02g026800
Inversion Chr5 28228028 28468394 OsKitaake05g265100

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	22937178	G-C	Hetero	INTERGENIC
SBS	Chr2	24349647	T-C	Homo	START_GAINED
SBS	Chr3	22478762	G-A	Hetero	INTERGENIC
SBS	Chr3	30852212	T-A	Hetero	INTERGENIC
SBS	Chr3	31836013	C-T	Hetero	INTERGENIC
SBS	Chr4	36545114	C-T	Hetero	INTERGENIC
SBS	Chr5	25836886	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g227600
SBS	Chr5	30060915	C-A	Homo	INTERGENIC
SBS	Chr5	30060916	C-A	Homo	INTERGENIC
SBS	Chr6	4618787	T-C	Hetero	INTERGENIC
SBS	Chr6	6706827	C-T	Hetero	INTERGENIC
SBS	Chr6	21906390	A-G	Hetero	INTERGENIC
SBS	Chr6	22736740	C-T	Hetero	INTERGENIC
SBS	Chr8	17959930	C-G	Hetero	INTRON
SBS	Chr10	1674655	T-A	Homo	INTERGENIC
SBS	Chr10	1674656	T-A	Homo	INTERGENIC
SBS	Chr10	3742376	G-A	Homo	INTERGENIC
SBS	Chr10	19225012	C-A	Homo	INTRON
SBS	Chr11	2235279	T-C	Homo	INTERGENIC
SBS	Chr11	13658260	A-T	Hetero	INTERGENIC
SBS	Chr12	22461742	G-A	Hetero	INTERGENIC
SBS	Chr12	27101900	C-G	Hetero	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr12	334382	334385	3
Deletion	Chr10	2852681	2852690	9
Deletion	Chr7	6517702	6517704	2
Deletion	Chr3	8921291	8921295	4
Deletion	Chr1	11741747	11741748	1
Deletion	Chr4	12745806	12745807	1
Deletion	Chr5	13491876	13491880	4
Deletion	Chr2	25251086	25251098	12
Deletion	Chr4	36732308	36732316	8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	1703561	2103513	OsKitaake02g026800
Inversion	Chr2	1703572	2103515	OsKitaake02g026800
Inversion	Chr5	28228028	28468394	OsKitaake05g265100

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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