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Mutant Information

Mutant Name	FN1686-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1686-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: 36

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 11279658 T-C Homo INTERGENIC
SBS Chr1 25477029 G-A Hetero INTERGENIC
SBS Chr2 5694825 G-A Hetero INTERGENIC
SBS Chr2 16063364 T-A Hetero INTERGENIC
SBS Chr2 24904186 G-A Homo INTERGENIC
SBS Chr2 29766856 C-A Homo INTRON
SBS Chr2 32075431 T-C Homo UTR_3_PRIME
SBS Chr2 33631935 C-T Homo INTERGENIC
SBS Chr3 12020148 T-C Hetero NON_SYNONYMOUS_CODING OsKitaake03g163400
SBS Chr4 4093570 A-C Hetero INTERGENIC
SBS Chr4 11076927 G-C Hetero INTERGENIC
SBS Chr4 24973986 C-T Hetero INTERGENIC
SBS Chr4 33255219 C-T Hetero INTERGENIC
SBS Chr4 35386318 G-T Hetero INTERGENIC
SBS Chr5 22031527 A-T Homo INTRON
SBS Chr5 22031528 A-T Homo INTRON
SBS Chr5 22031539 C-T Homo INTRON
SBS Chr5 23826485 G-T Homo INTERGENIC
SBS Chr6 15316824 C-A Homo INTERGENIC
SBS Chr7 864919 C-A Hetero INTERGENIC
SBS Chr7 3802852 T-G Hetero INTERGENIC
SBS Chr7 11077196 C-G Homo INTERGENIC
SBS Chr7 12744655 G-C Hetero INTERGENIC
SBS Chr7 13399271 C-T Hetero INTERGENIC
SBS Chr8 2610326 A-T Homo INTERGENIC
SBS Chr8 6641973 G-C Hetero INTERGENIC
SBS Chr8 29090586 G-T Hetero INTERGENIC
SBS Chr8 29090587 C-T Hetero INTERGENIC
SBS Chr10 13639739 G-T Hetero INTRON
SBS Chr10 15851538 G-T Hetero INTERGENIC
SBS Chr11 560610 C-T Hetero INTERGENIC
SBS Chr11 25543441 T-A Hetero INTERGENIC
SBS Chr12 11310374 G-C Hetero INTERGENIC
SBS Chr12 13005069 T-A Hetero INTERGENIC
SBS Chr12 21082953 C-T Hetero INTERGENIC
SBS Chr12 23592913 G-A Homo NON_SYNONYMOUS_CODING OsKitaake12g189301

Deletions: 23

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr12 823838 823839 1
Deletion Chr11 1086442 1086446 4
Deletion Chr2 1299113 1299115 2
Deletion Chr3 2197501 2197506 5
Deletion Chr1 3104248 3104253 5
Deletion Chr1 4040901 4040903 2
Deletion Chr10 5108934 5108942 8
Deletion Chr4 6824579 6824601 22
Deletion Chr3 8120987 8120988 1
Deletion Chr1 8640707 8640735 28
Deletion Chr10 11244435 11244445 10 OsKitaake10g066200
Deletion Chr10 12118689 12118690 1
Deletion Chr3 17529441 17529460 19
Deletion Chr2 19002650 19002652 2 OsKitaake02g186101
Deletion Chr8 19502166 19502167 1
Deletion Chr5 22027478 22027481 3
Deletion Chr3 24463287 24463291 4
Deletion Chr11 27903088 27903098 10
Deletion Chr5 30015001 30113000 97999 8
Deletion Chr5 30135001 30165000 29999
Deletion Chr5 30172001 30183000 10999
Deletion Chr5 30194001 30206000 11999
Deletion Chr2 32341412 32341414 2

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr8 23314169 23314172 2
Insertion Chr11 3043604 3043607 2

Inversions: 5

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 11759707 12152630
Inversion Chr1 25131167 25172419 OsKitaake01g243201
Inversion Chr1 25131168 25172421 OsKitaake01g243201
Inversion Chr1 39264540 39273151 2
Inversion Chr1 39264545 39273158 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	11279658	T-C	Homo	INTERGENIC
SBS	Chr1	25477029	G-A	Hetero	INTERGENIC
SBS	Chr2	5694825	G-A	Hetero	INTERGENIC
SBS	Chr2	16063364	T-A	Hetero	INTERGENIC
SBS	Chr2	24904186	G-A	Homo	INTERGENIC
SBS	Chr2	29766856	C-A	Homo	INTRON
SBS	Chr2	32075431	T-C	Homo	UTR_3_PRIME
SBS	Chr2	33631935	C-T	Homo	INTERGENIC
SBS	Chr3	12020148	T-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g163400
SBS	Chr4	4093570	A-C	Hetero	INTERGENIC
SBS	Chr4	11076927	G-C	Hetero	INTERGENIC
SBS	Chr4	24973986	C-T	Hetero	INTERGENIC
SBS	Chr4	33255219	C-T	Hetero	INTERGENIC
SBS	Chr4	35386318	G-T	Hetero	INTERGENIC
SBS	Chr5	22031527	A-T	Homo	INTRON
SBS	Chr5	22031528	A-T	Homo	INTRON
SBS	Chr5	22031539	C-T	Homo	INTRON
SBS	Chr5	23826485	G-T	Homo	INTERGENIC
SBS	Chr6	15316824	C-A	Homo	INTERGENIC
SBS	Chr7	864919	C-A	Hetero	INTERGENIC
SBS	Chr7	3802852	T-G	Hetero	INTERGENIC
SBS	Chr7	11077196	C-G	Homo	INTERGENIC
SBS	Chr7	12744655	G-C	Hetero	INTERGENIC
SBS	Chr7	13399271	C-T	Hetero	INTERGENIC
SBS	Chr8	2610326	A-T	Homo	INTERGENIC
SBS	Chr8	6641973	G-C	Hetero	INTERGENIC
SBS	Chr8	29090586	G-T	Hetero	INTERGENIC
SBS	Chr8	29090587	C-T	Hetero	INTERGENIC
SBS	Chr10	13639739	G-T	Hetero	INTRON
SBS	Chr10	15851538	G-T	Hetero	INTERGENIC
SBS	Chr11	560610	C-T	Hetero	INTERGENIC
SBS	Chr11	25543441	T-A	Hetero	INTERGENIC
SBS	Chr12	11310374	G-C	Hetero	INTERGENIC
SBS	Chr12	13005069	T-A	Hetero	INTERGENIC
SBS	Chr12	21082953	C-T	Hetero	INTERGENIC
SBS	Chr12	23592913	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake12g189301

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr12	823838	823839	1
Deletion	Chr11	1086442	1086446	4
Deletion	Chr2	1299113	1299115	2
Deletion	Chr3	2197501	2197506	5
Deletion	Chr1	3104248	3104253	5
Deletion	Chr1	4040901	4040903	2
Deletion	Chr10	5108934	5108942	8
Deletion	Chr4	6824579	6824601	22
Deletion	Chr3	8120987	8120988	1
Deletion	Chr1	8640707	8640735	28
Deletion	Chr10	11244435	11244445	10	OsKitaake10g066200
Deletion	Chr10	12118689	12118690	1
Deletion	Chr3	17529441	17529460	19
Deletion	Chr2	19002650	19002652	2	OsKitaake02g186101
Deletion	Chr8	19502166	19502167	1
Deletion	Chr5	22027478	22027481	3
Deletion	Chr3	24463287	24463291	4
Deletion	Chr11	27903088	27903098	10
Deletion	Chr5	30015001	30113000	97999	8
Deletion	Chr5	30135001	30165000	29999
Deletion	Chr5	30172001	30183000	10999
Deletion	Chr5	30194001	30206000	11999
Deletion	Chr2	32341412	32341414	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	11759707	12152630
Inversion	Chr1	25131167	25172419	OsKitaake01g243201
Inversion	Chr1	25131168	25172421	OsKitaake01g243201
Inversion	Chr1	39264540	39273151	2
Inversion	Chr1	39264545	39273158	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