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Mutant Information

Mutant Name	FN1375-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1375-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: 51

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 10092735 A-T Hetero NON_SYNONYMOUS_CODING OsKitaake01g127500
SBS Chr1 31348410 T-C Hetero INTERGENIC
SBS Chr1 40868832 G-A Homo SYNONYMOUS_CODING
SBS Chr2 8056152 T-C Hetero INTERGENIC
SBS Chr2 13874122 C-A Hetero INTERGENIC
SBS Chr2 19355377 T-A Hetero INTERGENIC
SBS Chr3 7480405 A-T Homo INTERGENIC
SBS Chr4 2528277 C-G Hetero INTERGENIC
SBS Chr4 15829622 A-G Hetero INTERGENIC
SBS Chr4 18141270 G-T Homo INTERGENIC
SBS Chr4 25193160 G-T Hetero INTERGENIC
SBS Chr4 34842630 G-A Homo INTERGENIC
SBS Chr4 34842631 C-A Homo INTERGENIC
SBS Chr5 4339141 T-A Homo INTERGENIC
SBS Chr5 12279784 A-G Hetero INTERGENIC
SBS Chr5 21645162 A-T Hetero INTERGENIC
SBS Chr5 27233589 A-G Homo INTERGENIC
SBS Chr5 27887026 G-A Hetero INTERGENIC
SBS Chr5 29496171 T-G Homo INTERGENIC
SBS Chr5 29603212 A-T Homo INTERGENIC
SBS Chr5 29633244 T-C Homo INTERGENIC
SBS Chr6 6570751 G-A Hetero INTERGENIC
SBS Chr6 14870566 A-T Hetero NON_SYNONYMOUS_CODING OsKitaake06g150101
SBS Chr6 16098535 G-A Hetero INTERGENIC
SBS Chr6 22157922 G-A Hetero INTERGENIC
SBS Chr7 2035409 T-C Hetero INTERGENIC
SBS Chr7 24647920 G-T Hetero INTERGENIC
SBS Chr8 28850 T-C Hetero INTRON
SBS Chr8 18636225 C-T Homo INTERGENIC
SBS Chr8 19504729 C-T Homo INTERGENIC
SBS Chr8 20487696 T-A Homo INTERGENIC
SBS Chr9 3442901 G-A Hetero INTERGENIC
SBS Chr9 7800630 C-A Hetero INTERGENIC
SBS Chr9 8862444 T-A Hetero INTERGENIC
SBS Chr9 10483910 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake09g065400
SBS Chr9 20151139 G-A Homo NON_SYNONYMOUS_CODING OsKitaake09g169150
SBS Chr9 20692779 A-C Homo SYNONYMOUS_CODING
SBS Chr9 21767036 T-A Hetero INTRON
SBS Chr10 8505124 G-A Hetero INTERGENIC
SBS Chr10 17154600 C-G Hetero INTRON
SBS Chr11 582028 C-A Homo INTERGENIC
SBS Chr11 18026594 C-T Hetero INTERGENIC
SBS Chr11 23100132 G-T Hetero INTRON
SBS Chr11 28251579 C-T Hetero INTERGENIC
SBS Chr12 1679003 T-G Hetero INTERGENIC
SBS Chr12 2566991 C-T Hetero INTERGENIC
SBS Chr12 2648388 C-A Hetero INTERGENIC
SBS Chr12 11615244 G-T Hetero INTERGENIC
SBS Chr12 15637597 T-A Hetero INTERGENIC
SBS Chr12 18715063 G-T Hetero INTERGENIC
SBS Chr12 26242468 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake12g217600

Deletions: 16

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 6754 7457 703
Deletion Chr10 3707494 3707500 6
Deletion Chr4 5738001 5788000 49999 2
Deletion Chr9 6686003 6686105 102
Deletion Chr6 11757033 11757036 3
Deletion Chr8 13136873 13136874 1
Deletion Chr2 13818281 13818435 154
Deletion Chr3 17490053 17490055 2
Deletion Chr10 18416618 18416621 3
Deletion Chr9 18543934 18543936 2
Deletion Chr3 18788530 18788534 4
Deletion Chr1 19776001 19800000 23999
Deletion Chr8 21917685 21917689 4
Deletion Chr12 22303844 22303845 1
Deletion Chr8 25868840 25868842 2
Deletion Chr4 29325727 29325731 4

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 30371996 30371999 2
Insertion Chr1 41466522 41466527 4
Insertion Chr1 41606577 41606580 2
Insertion Chr1 43985976 43985979 2
Insertion Chr9 12278081 12278084 2

Inversions: 5

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 11740176 11831658
Inversion Chr2 14414764 14429466
Inversion Chr2 21545676 21653713
Inversion Chr2 21545682 21653721
Inversion Chr6 30659599 30876982 2

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 6910555 Chr1 19797620
Translocation Chr11 6910816 Chr1 19797902
Translocation Chr6 30659609 Chr4 35841471 2
Translocation Chr6 30876990 Chr4 35843212 OsKitaake06g292100

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10092735	A-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g127500
SBS	Chr1	31348410	T-C	Hetero	INTERGENIC
SBS	Chr1	40868832	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr2	8056152	T-C	Hetero	INTERGENIC
SBS	Chr2	13874122	C-A	Hetero	INTERGENIC
SBS	Chr2	19355377	T-A	Hetero	INTERGENIC
SBS	Chr3	7480405	A-T	Homo	INTERGENIC
SBS	Chr4	2528277	C-G	Hetero	INTERGENIC
SBS	Chr4	15829622	A-G	Hetero	INTERGENIC
SBS	Chr4	18141270	G-T	Homo	INTERGENIC
SBS	Chr4	25193160	G-T	Hetero	INTERGENIC
SBS	Chr4	34842630	G-A	Homo	INTERGENIC
SBS	Chr4	34842631	C-A	Homo	INTERGENIC
SBS	Chr5	4339141	T-A	Homo	INTERGENIC
SBS	Chr5	12279784	A-G	Hetero	INTERGENIC
SBS	Chr5	21645162	A-T	Hetero	INTERGENIC
SBS	Chr5	27233589	A-G	Homo	INTERGENIC
SBS	Chr5	27887026	G-A	Hetero	INTERGENIC
SBS	Chr5	29496171	T-G	Homo	INTERGENIC
SBS	Chr5	29603212	A-T	Homo	INTERGENIC
SBS	Chr5	29633244	T-C	Homo	INTERGENIC
SBS	Chr6	6570751	G-A	Hetero	INTERGENIC
SBS	Chr6	14870566	A-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g150101
SBS	Chr6	16098535	G-A	Hetero	INTERGENIC
SBS	Chr6	22157922	G-A	Hetero	INTERGENIC
SBS	Chr7	2035409	T-C	Hetero	INTERGENIC
SBS	Chr7	24647920	G-T	Hetero	INTERGENIC
SBS	Chr8	28850	T-C	Hetero	INTRON
SBS	Chr8	18636225	C-T	Homo	INTERGENIC
SBS	Chr8	19504729	C-T	Homo	INTERGENIC
SBS	Chr8	20487696	T-A	Homo	INTERGENIC
SBS	Chr9	3442901	G-A	Hetero	INTERGENIC
SBS	Chr9	7800630	C-A	Hetero	INTERGENIC
SBS	Chr9	8862444	T-A	Hetero	INTERGENIC
SBS	Chr9	10483910	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake09g065400
SBS	Chr9	20151139	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake09g169150
SBS	Chr9	20692779	A-C	Homo	SYNONYMOUS_CODING
SBS	Chr9	21767036	T-A	Hetero	INTRON
SBS	Chr10	8505124	G-A	Hetero	INTERGENIC
SBS	Chr10	17154600	C-G	Hetero	INTRON
SBS	Chr11	582028	C-A	Homo	INTERGENIC
SBS	Chr11	18026594	C-T	Hetero	INTERGENIC
SBS	Chr11	23100132	G-T	Hetero	INTRON
SBS	Chr11	28251579	C-T	Hetero	INTERGENIC
SBS	Chr12	1679003	T-G	Hetero	INTERGENIC
SBS	Chr12	2566991	C-T	Hetero	INTERGENIC
SBS	Chr12	2648388	C-A	Hetero	INTERGENIC
SBS	Chr12	11615244	G-T	Hetero	INTERGENIC
SBS	Chr12	15637597	T-A	Hetero	INTERGENIC
SBS	Chr12	18715063	G-T	Hetero	INTERGENIC
SBS	Chr12	26242468	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake12g217600

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	6754	7457	703
Deletion	Chr10	3707494	3707500	6
Deletion	Chr4	5738001	5788000	49999	2
Deletion	Chr9	6686003	6686105	102
Deletion	Chr6	11757033	11757036	3
Deletion	Chr8	13136873	13136874	1
Deletion	Chr2	13818281	13818435	154
Deletion	Chr3	17490053	17490055	2
Deletion	Chr10	18416618	18416621	3
Deletion	Chr9	18543934	18543936	2
Deletion	Chr3	18788530	18788534	4
Deletion	Chr1	19776001	19800000	23999
Deletion	Chr8	21917685	21917689	4
Deletion	Chr12	22303844	22303845	1
Deletion	Chr8	25868840	25868842	2
Deletion	Chr4	29325727	29325731	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	11740176	11831658
Inversion	Chr2	14414764	14429466
Inversion	Chr2	21545676	21653713
Inversion	Chr2	21545682	21653721
Inversion	Chr6	30659599	30876982	2

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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