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Mutant Information

Mutant Name	FN1412-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1412-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) = High (Between 126% and 175%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 43

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 9955027 G-A Hetero INTRON
SBS Chr1 21241786 T-G Homo INTERGENIC
SBS Chr1 23907023 A-G Homo INTERGENIC
SBS Chr2 6986784 C-T Homo INTERGENIC
SBS Chr2 11814254 C-T Homo INTRON
SBS Chr2 17056031 G-T Homo INTERGENIC
SBS Chr2 20676107 T-A Homo INTERGENIC
SBS Chr2 23035710 G-A Hetero INTERGENIC
SBS Chr2 32753062 G-A Homo INTERGENIC
SBS Chr3 4764306 T-C Hetero INTERGENIC
SBS Chr3 11940419 C-G Hetero SYNONYMOUS_CODING
SBS Chr3 16431491 A-G Hetero INTERGENIC
SBS Chr3 24377110 T-C Hetero INTERGENIC
SBS Chr4 4808095 T-G Homo INTERGENIC
SBS Chr4 11578655 A-G Hetero INTERGENIC
SBS Chr4 15700633 C-G Hetero INTERGENIC
SBS Chr4 25669330 C-T Homo INTERGENIC
SBS Chr4 36278704 C-G Homo INTERGENIC
SBS Chr5 5863112 G-T Hetero INTERGENIC
SBS Chr5 11050117 C-T Hetero INTERGENIC
SBS Chr5 16759021 G-A Hetero INTERGENIC
SBS Chr5 17170014 C-T Hetero INTERGENIC
SBS Chr6 3513150 C-T Homo SYNONYMOUS_CODING
SBS Chr6 10444521 C-T Homo INTERGENIC
SBS Chr6 16836017 C-T Homo INTERGENIC
SBS Chr7 11562020 T-A Hetero INTERGENIC
SBS Chr8 1940105 A-C Hetero INTERGENIC
SBS Chr8 6570121 T-C Hetero INTERGENIC
SBS Chr9 6208583 G-A Hetero INTRON
SBS Chr9 19362398 T-A Homo INTERGENIC
SBS Chr10 17873836 C-T Homo INTERGENIC
SBS Chr11 6052916 G-A Hetero INTERGENIC
SBS Chr11 8516073 T-G Hetero INTERGENIC
SBS Chr11 8562476 T-C Hetero INTERGENIC
SBS Chr11 12751597 G-A Hetero INTERGENIC
SBS Chr11 12824286 C-T Hetero INTERGENIC
SBS Chr11 16382412 A-G Hetero INTRON
SBS Chr11 28855125 A-T Hetero SYNONYMOUS_CODING
SBS Chr11 28855128 G-T Hetero SYNONYMOUS_CODING
SBS Chr12 9001127 G-T Hetero INTERGENIC
SBS Chr12 14839073 G-A Hetero INTERGENIC
SBS Chr12 21463018 T-G Homo INTERGENIC
SBS Chr12 27055543 G-A Homo INTERGENIC

Deletions: 12

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 994586 994591 5
Deletion Chr5 1370001 1383000 12999 OsKitaake05g017100
Deletion Chr9 5713525 5713527 2
Deletion Chr9 8720815 8720822 7
Deletion Chr4 10450061 10450226 165
Deletion Chr4 11011298 11011309 11
Deletion Chr4 19435001 19449000 13999 OsKitaake04g099601
Deletion Chr1 19698834 19698835 1
Deletion Chr12 20734708 20734710 2
Deletion Chr3 22948605 22948607 2 OsKitaake03g248100
Deletion Chr12 24659739 24659743 4
Deletion Chr5 29997022 29997026 4

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 6260186 6260189 2
Insertion Chr5 4913987 4913991 3
Insertion Chr9 19418697 19418699 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 26300 844479 OsKitaake02g012000
Inversion Chr2 26313 844499 OsKitaake02g012000
Inversion Chr6 5977420 6782181
Inversion Chr3 12303029 12549288 OsKitaake03g169400

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 10658704 Chr2 9667082 OsKitaake02g117800
Translocation Chr3 12303034 Chr2 2868790 OsKitaake02g041100

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	9955027	G-A	Hetero	INTRON
SBS	Chr1	21241786	T-G	Homo	INTERGENIC
SBS	Chr1	23907023	A-G	Homo	INTERGENIC
SBS	Chr2	6986784	C-T	Homo	INTERGENIC
SBS	Chr2	11814254	C-T	Homo	INTRON
SBS	Chr2	17056031	G-T	Homo	INTERGENIC
SBS	Chr2	20676107	T-A	Homo	INTERGENIC
SBS	Chr2	23035710	G-A	Hetero	INTERGENIC
SBS	Chr2	32753062	G-A	Homo	INTERGENIC
SBS	Chr3	4764306	T-C	Hetero	INTERGENIC
SBS	Chr3	11940419	C-G	Hetero	SYNONYMOUS_CODING
SBS	Chr3	16431491	A-G	Hetero	INTERGENIC
SBS	Chr3	24377110	T-C	Hetero	INTERGENIC
SBS	Chr4	4808095	T-G	Homo	INTERGENIC
SBS	Chr4	11578655	A-G	Hetero	INTERGENIC
SBS	Chr4	15700633	C-G	Hetero	INTERGENIC
SBS	Chr4	25669330	C-T	Homo	INTERGENIC
SBS	Chr4	36278704	C-G	Homo	INTERGENIC
SBS	Chr5	5863112	G-T	Hetero	INTERGENIC
SBS	Chr5	11050117	C-T	Hetero	INTERGENIC
SBS	Chr5	16759021	G-A	Hetero	INTERGENIC
SBS	Chr5	17170014	C-T	Hetero	INTERGENIC
SBS	Chr6	3513150	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr6	10444521	C-T	Homo	INTERGENIC
SBS	Chr6	16836017	C-T	Homo	INTERGENIC
SBS	Chr7	11562020	T-A	Hetero	INTERGENIC
SBS	Chr8	1940105	A-C	Hetero	INTERGENIC
SBS	Chr8	6570121	T-C	Hetero	INTERGENIC
SBS	Chr9	6208583	G-A	Hetero	INTRON
SBS	Chr9	19362398	T-A	Homo	INTERGENIC
SBS	Chr10	17873836	C-T	Homo	INTERGENIC
SBS	Chr11	6052916	G-A	Hetero	INTERGENIC
SBS	Chr11	8516073	T-G	Hetero	INTERGENIC
SBS	Chr11	8562476	T-C	Hetero	INTERGENIC
SBS	Chr11	12751597	G-A	Hetero	INTERGENIC
SBS	Chr11	12824286	C-T	Hetero	INTERGENIC
SBS	Chr11	16382412	A-G	Hetero	INTRON
SBS	Chr11	28855125	A-T	Hetero	SYNONYMOUS_CODING
SBS	Chr11	28855128	G-T	Hetero	SYNONYMOUS_CODING
SBS	Chr12	9001127	G-T	Hetero	INTERGENIC
SBS	Chr12	14839073	G-A	Hetero	INTERGENIC
SBS	Chr12	21463018	T-G	Homo	INTERGENIC
SBS	Chr12	27055543	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	994586	994591	5
Deletion	Chr5	1370001	1383000	12999	OsKitaake05g017100
Deletion	Chr9	5713525	5713527	2
Deletion	Chr9	8720815	8720822	7
Deletion	Chr4	10450061	10450226	165
Deletion	Chr4	11011298	11011309	11
Deletion	Chr4	19435001	19449000	13999	OsKitaake04g099601
Deletion	Chr1	19698834	19698835	1
Deletion	Chr12	20734708	20734710	2
Deletion	Chr3	22948605	22948607	2	OsKitaake03g248100
Deletion	Chr12	24659739	24659743	4
Deletion	Chr5	29997022	29997026	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	26300	844479	OsKitaake02g012000
Inversion	Chr2	26313	844499	OsKitaake02g012000
Inversion	Chr6	5977420	6782181
Inversion	Chr3	12303029	12549288	OsKitaake03g169400

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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