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Mutant Information

Mutant Name	FN1496-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1496-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: 26

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 8704677 C-T Homo NON_SYNONYMOUS_CODING OsKitaake01g109200
SBS Chr1 10978641 A-G Hetero INTRON
SBS Chr1 13620410 T-G Hetero INTERGENIC
SBS Chr3 1743554 T-A Homo UTR_3_PRIME
SBS Chr3 2626299 T-C Homo INTRON
SBS Chr3 9955634 C-T Hetero INTERGENIC
SBS Chr3 23233429 A-T Hetero INTERGENIC
SBS Chr3 31586302 G-T Homo INTRON
SBS Chr4 4042752 G-A Homo SYNONYMOUS_CODING
SBS Chr4 17098836 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake04g083400
SBS Chr5 12601814 G-A Hetero INTERGENIC
SBS Chr6 21066304 G-A Hetero INTERGENIC
SBS Chr6 26213312 T-C Hetero INTERGENIC
SBS Chr7 7556550 T-A Homo INTERGENIC
SBS Chr7 7556551 T-A Homo INTERGENIC
SBS Chr7 26718303 G-A Homo INTERGENIC
SBS Chr7 29236025 G-A Homo INTERGENIC
SBS Chr7 29236026 G-A Homo INTERGENIC
SBS Chr8 1497306 C-A Homo INTERGENIC
SBS Chr8 6928764 C-T Homo INTERGENIC
SBS Chr8 15354103 T-G Hetero INTERGENIC
SBS Chr9 19430829 T-A Hetero INTERGENIC
SBS Chr9 21340260 A-C Hetero INTRON
SBS Chr10 12732350 C-A Homo INTERGENIC
SBS Chr11 2719539 G-T Homo INTERGENIC
SBS Chr11 8366838 C-T Homo INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr3 2453403 2453404 1
Deletion Chr3 2626077 2626087 10 OsKitaake03g037300
Deletion Chr2 2928001 2977000 48999 5
Deletion Chr11 5940992 5940997 5
Deletion Chr10 12803543 12803549 6
Deletion Chr9 15744048 15744049 1
Deletion Chr11 18093947 18094315 368
Deletion Chr7 20549589 20549591 2
Deletion Chr12 20981035 20981054 19
Deletion Chr7 26251259 26251260 1 OsKitaake07g241100
Deletion Chr3 30508825 30508828 3
Deletion Chr1 31482133 31482211 78 OsKitaake01g316000
Deletion Chr1 31545583 31545585 2
Deletion Chr1 39944724 39944726 2
Deletion Chr1 40782771 40782773 2 OsKitaake01g443800

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 43536310 43536313 2
Insertion Chr2 13778278 13778280 1
Insertion Chr8 29297879 29297882 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 19866970 20163585
Inversion Chr4 19866971 20163587

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	8704677	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g109200
SBS	Chr1	10978641	A-G	Hetero	INTRON
SBS	Chr1	13620410	T-G	Hetero	INTERGENIC
SBS	Chr3	1743554	T-A	Homo	UTR_3_PRIME
SBS	Chr3	2626299	T-C	Homo	INTRON
SBS	Chr3	9955634	C-T	Hetero	INTERGENIC
SBS	Chr3	23233429	A-T	Hetero	INTERGENIC
SBS	Chr3	31586302	G-T	Homo	INTRON
SBS	Chr4	4042752	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr4	17098836	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g083400
SBS	Chr5	12601814	G-A	Hetero	INTERGENIC
SBS	Chr6	21066304	G-A	Hetero	INTERGENIC
SBS	Chr6	26213312	T-C	Hetero	INTERGENIC
SBS	Chr7	7556550	T-A	Homo	INTERGENIC
SBS	Chr7	7556551	T-A	Homo	INTERGENIC
SBS	Chr7	26718303	G-A	Homo	INTERGENIC
SBS	Chr7	29236025	G-A	Homo	INTERGENIC
SBS	Chr7	29236026	G-A	Homo	INTERGENIC
SBS	Chr8	1497306	C-A	Homo	INTERGENIC
SBS	Chr8	6928764	C-T	Homo	INTERGENIC
SBS	Chr8	15354103	T-G	Hetero	INTERGENIC
SBS	Chr9	19430829	T-A	Hetero	INTERGENIC
SBS	Chr9	21340260	A-C	Hetero	INTRON
SBS	Chr10	12732350	C-A	Homo	INTERGENIC
SBS	Chr11	2719539	G-T	Homo	INTERGENIC
SBS	Chr11	8366838	C-T	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr3	2453403	2453404	1
Deletion	Chr3	2626077	2626087	10	OsKitaake03g037300
Deletion	Chr2	2928001	2977000	48999	5
Deletion	Chr11	5940992	5940997	5
Deletion	Chr10	12803543	12803549	6
Deletion	Chr9	15744048	15744049	1
Deletion	Chr11	18093947	18094315	368
Deletion	Chr7	20549589	20549591	2
Deletion	Chr12	20981035	20981054	19
Deletion	Chr7	26251259	26251260	1	OsKitaake07g241100
Deletion	Chr3	30508825	30508828	3
Deletion	Chr1	31482133	31482211	78	OsKitaake01g316000
Deletion	Chr1	31545583	31545585	2
Deletion	Chr1	39944724	39944726	2
Deletion	Chr1	40782771	40782773	2	OsKitaake01g443800

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	19866970	20163585
Inversion	Chr4	19866971	20163587

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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