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Mutant Information

Mutant Name	FN1135-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1135-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Low (Between 25% and 74%) TO:0000430 (Germination Rate) = Low (Between 25% and 75%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Phenotype Changes (Hover to Zoom-In)

Variant Information

Single base substitutions: 29

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 11120155 G-A Hetero INTERGENIC
SBS Chr1 17827585 C-A Hetero INTRON
SBS Chr1 39594202 G-T Hetero SYNONYMOUS_CODING
SBS Chr1 39594204 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake01g427600
SBS Chr2 31810259 C-A Homo INTRON
SBS Chr2 32611844 G-A Homo INTERGENIC
SBS Chr3 3796608 C-T Hetero INTRON
SBS Chr4 1997367 C-T Hetero INTERGENIC
SBS Chr4 4444311 G-A Homo INTERGENIC
SBS Chr4 29038454 A-T Hetero INTERGENIC
SBS Chr5 2078233 A-G Hetero INTERGENIC
SBS Chr5 6746928 C-T Hetero INTERGENIC
SBS Chr7 7749252 C-T Hetero INTERGENIC
SBS Chr7 16565088 G-A Homo INTERGENIC
SBS Chr7 16565089 G-A Homo INTERGENIC
SBS Chr7 21835419 G-A Hetero INTERGENIC
SBS Chr8 20296353 A-G Hetero INTERGENIC
SBS Chr9 8182619 C-T Hetero INTERGENIC
SBS Chr9 11248363 T-A Homo INTERGENIC
SBS Chr9 11625540 G-A Hetero INTERGENIC
SBS Chr10 7257281 A-T Hetero INTERGENIC
SBS Chr10 18009789 T-G Hetero NON_SYNONYMOUS_CODING OsKitaake10g126900
SBS Chr10 18628958 T-G Hetero INTERGENIC
SBS Chr11 10302453 G-A Hetero INTERGENIC
SBS Chr11 13993162 T-C Hetero INTERGENIC
SBS Chr11 23215499 C-A Homo INTERGENIC
SBS Chr11 24385621 G-A Homo INTERGENIC
SBS Chr11 25096756 C-T Homo INTERGENIC
SBS Chr12 4086089 C-T Hetero INTRON

Deletions: 21

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr8 5059992 5059994 2
Deletion Chr1 5080577 5080579 2
Deletion Chr11 5770354 5770365 11 OsKitaake11g070700
Deletion Chr12 7999508 7999510 2
Deletion Chr11 10238501 10238503 2
Deletion Chr6 13066367 13066387 20
Deletion Chr10 15677001 15716000 38999 2
Deletion Chr10 16853704 16853705 1
Deletion Chr11 17559908 17559909 1
Deletion Chr3 17943989 17943990 1
Deletion Chr1 18550267 18550269 2
Deletion Chr7 18906381 18906383 2
Deletion Chr1 19369001 19397000 27999 2
Deletion Chr8 21405234 21405236 2
Deletion Chr1 21853001 22365000 511999 29
Deletion Chr10 22441762 22441764 2
Deletion Chr8 24070482 24070491 9
Deletion Chr6 26660360 26660366 6
Deletion Chr3 27782285 27782293 8
Deletion Chr1 39190001 39297000 106999 16
Deletion Chr1 39310001 39345000 34999 9

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 10747220 10747223 2
Insertion Chr4 19965017 19965020 2
Insertion Chr3 20050183 20050185 1
Insertion Chr10 4427109 4427111 1

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr1 38925967 39192484 2

Translocations: 10

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 3622290 Chr1 22364109
Translocation Chr9 3622294 Chr1 22364340
Translocation Chr4 7679669 Chr1 38485595
Translocation Chr4 7679679 Chr1 38484558 OsKitaake01g411100
Translocation Chr9 9006792 Chr4 34119113 OsKitaake04g284909
Translocation Chr9 9006796 Chr4 34119099 OsKitaake04g284909
Translocation Chr7 16563270 Chr1 22298587
Translocation Chr7 17633347 Chr1 22298837 OsKitaake07g143100
Translocation Chr2 23601999 Chr1 22364485
Translocation Chr2 23602154 Chr1 39344886

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	11120155	G-A	Hetero	INTERGENIC
SBS	Chr1	17827585	C-A	Hetero	INTRON
SBS	Chr1	39594202	G-T	Hetero	SYNONYMOUS_CODING
SBS	Chr1	39594204	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g427600
SBS	Chr2	31810259	C-A	Homo	INTRON
SBS	Chr2	32611844	G-A	Homo	INTERGENIC
SBS	Chr3	3796608	C-T	Hetero	INTRON
SBS	Chr4	1997367	C-T	Hetero	INTERGENIC
SBS	Chr4	4444311	G-A	Homo	INTERGENIC
SBS	Chr4	29038454	A-T	Hetero	INTERGENIC
SBS	Chr5	2078233	A-G	Hetero	INTERGENIC
SBS	Chr5	6746928	C-T	Hetero	INTERGENIC
SBS	Chr7	7749252	C-T	Hetero	INTERGENIC
SBS	Chr7	16565088	G-A	Homo	INTERGENIC
SBS	Chr7	16565089	G-A	Homo	INTERGENIC
SBS	Chr7	21835419	G-A	Hetero	INTERGENIC
SBS	Chr8	20296353	A-G	Hetero	INTERGENIC
SBS	Chr9	8182619	C-T	Hetero	INTERGENIC
SBS	Chr9	11248363	T-A	Homo	INTERGENIC
SBS	Chr9	11625540	G-A	Hetero	INTERGENIC
SBS	Chr10	7257281	A-T	Hetero	INTERGENIC
SBS	Chr10	18009789	T-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake10g126900
SBS	Chr10	18628958	T-G	Hetero	INTERGENIC
SBS	Chr11	10302453	G-A	Hetero	INTERGENIC
SBS	Chr11	13993162	T-C	Hetero	INTERGENIC
SBS	Chr11	23215499	C-A	Homo	INTERGENIC
SBS	Chr11	24385621	G-A	Homo	INTERGENIC
SBS	Chr11	25096756	C-T	Homo	INTERGENIC
SBS	Chr12	4086089	C-T	Hetero	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr8	5059992	5059994	2
Deletion	Chr1	5080577	5080579	2
Deletion	Chr11	5770354	5770365	11	OsKitaake11g070700
Deletion	Chr12	7999508	7999510	2
Deletion	Chr11	10238501	10238503	2
Deletion	Chr6	13066367	13066387	20
Deletion	Chr10	15677001	15716000	38999	2
Deletion	Chr10	16853704	16853705	1
Deletion	Chr11	17559908	17559909	1
Deletion	Chr3	17943989	17943990	1
Deletion	Chr1	18550267	18550269	2
Deletion	Chr7	18906381	18906383	2
Deletion	Chr1	19369001	19397000	27999	2
Deletion	Chr8	21405234	21405236	2
Deletion	Chr1	21853001	22365000	511999	29
Deletion	Chr10	22441762	22441764	2
Deletion	Chr8	24070482	24070491	9
Deletion	Chr6	26660360	26660366	6
Deletion	Chr3	27782285	27782293	8
Deletion	Chr1	39190001	39297000	106999	16
Deletion	Chr1	39310001	39345000	34999	9

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	38925967	39192484	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