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Mutant Information

Mutant Name	FN1394-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1394-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: 42

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 3521815 A-G Hetero SYNONYMOUS_CODING
SBS Chr1 8664519 C-T Hetero INTRON
SBS Chr1 13658081 A-T Hetero INTERGENIC
SBS Chr1 18100678 T-C Hetero INTERGENIC
SBS Chr1 21115130 A-T Hetero INTERGENIC
SBS Chr2 19628294 A-T Hetero INTERGENIC
SBS Chr2 25091686 C-A Hetero INTERGENIC
SBS Chr2 28493266 C-T Homo INTERGENIC
SBS Chr3 5538453 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake03g078750
SBS Chr3 8243658 T-A Hetero INTERGENIC
SBS Chr3 15191147 A-T Hetero INTERGENIC
SBS Chr3 16149037 T-A Homo INTRON
SBS Chr3 23956590 G-C Homo INTERGENIC
SBS Chr3 25054222 G-T Homo INTERGENIC
SBS Chr3 29108925 C-A Hetero INTERGENIC
SBS Chr3 31379579 C-A Hetero INTERGENIC
SBS Chr4 4283382 T-C Homo INTERGENIC
SBS Chr4 6237333 C-G Homo INTERGENIC
SBS Chr4 14769301 G-A Homo INTERGENIC
SBS Chr4 18447996 T-A Homo INTERGENIC
SBS Chr4 34887829 G-T Hetero INTERGENIC
SBS Chr6 2075154 A-G Hetero UTR_3_PRIME
SBS Chr6 12724958 C-T Homo INTRON
SBS Chr7 13160897 A-T Hetero INTERGENIC
SBS Chr7 16916497 C-G Homo INTERGENIC
SBS Chr7 18093695 C-A Hetero INTRON
SBS Chr8 24026663 C-T Homo INTERGENIC
SBS Chr8 24932003 G-T Hetero INTERGENIC
SBS Chr8 26353993 G-C Homo INTRON
SBS Chr9 1214016 C-T Homo UTR_5_PRIME
SBS Chr9 13825463 A-G Hetero INTERGENIC
SBS Chr9 21184675 A-G Hetero INTERGENIC
SBS Chr10 8214867 C-T Homo INTERGENIC
SBS Chr10 20017151 A-G Hetero INTERGENIC
SBS Chr11 553600 C-T Homo INTERGENIC
SBS Chr11 3419151 T-C Homo INTERGENIC
SBS Chr11 13082054 G-C Homo INTERGENIC
SBS Chr12 5843336 G-A Hetero INTERGENIC
SBS Chr12 5857014 T-A Hetero INTERGENIC
SBS Chr12 8864168 G-A Hetero INTERGENIC
SBS Chr12 13652154 C-T Hetero SYNONYMOUS_CODING
SBS Chr12 23098822 G-A Homo INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 6888313 6888316 3
Deletion Chr6 7612124 7612125 1
Deletion Chr1 9646001 9661000 14999 OsKitaake01g123400
Deletion Chr3 11614504 11614506 2
Deletion Chr4 12853316 12853325 9
Deletion Chr9 13341845 13341855 10
Deletion Chr6 13388479 13388482 3
Deletion Chr5 19697158 19697160 2
Deletion Chr7 22225194 22225196 2
Deletion Chr3 24696713 24696725 12
Deletion Chr6 26295801 26295807 6
Deletion Chr2 29070414 29070419 5
Deletion Chr2 35332312 35332322 10

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 14747241 14747244 2
Insertion Chr3 9342174 9342179 4
Insertion Chr5 10605087 10605092 4
Insertion Chr6 4713372 4713375 2
Insertion Chr7 24181624 24181627 2
Insertion Chr5 12464015 12464017 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr7 11203726 11207861
Inversion Chr7 11203737 11207863

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr7 3714744 Chr2 37067135 2
Translocation Chr7 3716212 Chr2 37068107 OsKitaake02g398300
Translocation Chr4 17376871 Chr2 37067149 2
Translocation Chr4 17376878 Chr2 37068102 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3521815	A-G	Hetero	SYNONYMOUS_CODING
SBS	Chr1	8664519	C-T	Hetero	INTRON
SBS	Chr1	13658081	A-T	Hetero	INTERGENIC
SBS	Chr1	18100678	T-C	Hetero	INTERGENIC
SBS	Chr1	21115130	A-T	Hetero	INTERGENIC
SBS	Chr2	19628294	A-T	Hetero	INTERGENIC
SBS	Chr2	25091686	C-A	Hetero	INTERGENIC
SBS	Chr2	28493266	C-T	Homo	INTERGENIC
SBS	Chr3	5538453	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g078750
SBS	Chr3	8243658	T-A	Hetero	INTERGENIC
SBS	Chr3	15191147	A-T	Hetero	INTERGENIC
SBS	Chr3	16149037	T-A	Homo	INTRON
SBS	Chr3	23956590	G-C	Homo	INTERGENIC
SBS	Chr3	25054222	G-T	Homo	INTERGENIC
SBS	Chr3	29108925	C-A	Hetero	INTERGENIC
SBS	Chr3	31379579	C-A	Hetero	INTERGENIC
SBS	Chr4	4283382	T-C	Homo	INTERGENIC
SBS	Chr4	6237333	C-G	Homo	INTERGENIC
SBS	Chr4	14769301	G-A	Homo	INTERGENIC
SBS	Chr4	18447996	T-A	Homo	INTERGENIC
SBS	Chr4	34887829	G-T	Hetero	INTERGENIC
SBS	Chr6	2075154	A-G	Hetero	UTR_3_PRIME
SBS	Chr6	12724958	C-T	Homo	INTRON
SBS	Chr7	13160897	A-T	Hetero	INTERGENIC
SBS	Chr7	16916497	C-G	Homo	INTERGENIC
SBS	Chr7	18093695	C-A	Hetero	INTRON
SBS	Chr8	24026663	C-T	Homo	INTERGENIC
SBS	Chr8	24932003	G-T	Hetero	INTERGENIC
SBS	Chr8	26353993	G-C	Homo	INTRON
SBS	Chr9	1214016	C-T	Homo	UTR_5_PRIME
SBS	Chr9	13825463	A-G	Hetero	INTERGENIC
SBS	Chr9	21184675	A-G	Hetero	INTERGENIC
SBS	Chr10	8214867	C-T	Homo	INTERGENIC
SBS	Chr10	20017151	A-G	Hetero	INTERGENIC
SBS	Chr11	553600	C-T	Homo	INTERGENIC
SBS	Chr11	3419151	T-C	Homo	INTERGENIC
SBS	Chr11	13082054	G-C	Homo	INTERGENIC
SBS	Chr12	5843336	G-A	Hetero	INTERGENIC
SBS	Chr12	5857014	T-A	Hetero	INTERGENIC
SBS	Chr12	8864168	G-A	Hetero	INTERGENIC
SBS	Chr12	13652154	C-T	Hetero	SYNONYMOUS_CODING
SBS	Chr12	23098822	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	6888313	6888316	3
Deletion	Chr6	7612124	7612125	1
Deletion	Chr1	9646001	9661000	14999	OsKitaake01g123400
Deletion	Chr3	11614504	11614506	2
Deletion	Chr4	12853316	12853325	9
Deletion	Chr9	13341845	13341855	10
Deletion	Chr6	13388479	13388482	3
Deletion	Chr5	19697158	19697160	2
Deletion	Chr7	22225194	22225196	2
Deletion	Chr3	24696713	24696725	12
Deletion	Chr6	26295801	26295807	6
Deletion	Chr2	29070414	29070419	5
Deletion	Chr2	35332312	35332322	10

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	11203726	11207861
Inversion	Chr7	11203737	11207863

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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