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Mutant Information

Mutant Name	FN840-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN840-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 30

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 12489967 T-C Hetero INTRON
SBS Chr1 29584332 C-T Hetero INTERGENIC
SBS Chr2 5738044 G-T Hetero INTERGENIC
SBS Chr2 29997897 T-A Hetero INTERGENIC
SBS Chr2 31139033 C-T Hetero INTERGENIC
SBS Chr3 19839334 C-T Homo INTERGENIC
SBS Chr3 22227578 C-T Homo INTERGENIC
SBS Chr3 37672789 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake03g423200
SBS Chr4 13912246 T-A Hetero INTERGENIC
SBS Chr4 25562048 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake04g176500
SBS Chr5 21730109 C-T Hetero INTERGENIC
SBS Chr5 25008690 C-T Hetero INTERGENIC
SBS Chr5 28583061 C-G Hetero INTERGENIC
SBS Chr7 5596683 A-T Hetero INTRON
SBS Chr7 5596684 G-A Hetero INTRON
SBS Chr7 25889533 A-G Hetero INTERGENIC
SBS Chr7 28884170 C-T Hetero INTERGENIC
SBS Chr8 25010289 A-C Hetero INTERGENIC
SBS Chr8 26282946 A-T Hetero INTERGENIC
SBS Chr10 13389284 C-A Hetero INTRON
SBS Chr10 15036635 C-T Hetero INTERGENIC
SBS Chr10 15036636 C-T Hetero INTERGENIC
SBS Chr10 15038290 A-C Hetero INTERGENIC
SBS Chr11 964855 G-A Hetero INTERGENIC
SBS Chr11 1750368 T-C Hetero INTERGENIC
SBS Chr11 4638605 A-T Hetero INTERGENIC
SBS Chr11 4638606 G-T Hetero INTERGENIC
SBS Chr11 5468717 G-T Hetero INTERGENIC
SBS Chr11 8937575 G-T Hetero INTERGENIC
SBS Chr12 7688109 T-A Hetero INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 565001 599000 33999 2
Deletion Chr6 7631309 7631311 2
Deletion Chr4 13632001 13802000 169999 3
Deletion Chr12 17029330 17029337 7
Deletion Chr4 18466621 18466627 6
Deletion Chr1 18854849 18854851 2
Deletion Chr3 25064963 25064968 5
Deletion Chr4 28748271 28748277 6 OsKitaake04g215500
Deletion Chr3 30285094 30285095 1 OsKitaake03g317800
Deletion Chr1 30564285 30564295 10 OsKitaake01g302500
Deletion Chr4 33381349 33381358 9
Deletion Chr1 40046575 40046583 8
Deletion Chr1 43606001 43710000 103999 18

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 25610951 25610954 2
Insertion Chr4 20651275 20651278 2
Insertion Chr8 20904666 20904669 2

Inversions: 7

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 548774 566546 OsKitaake10g004100
Inversion Chr10 602994 1306832
Inversion Chr4 12876215 13633401 OsKitaake04g066000
Inversion Chr4 12876223 13800782
Inversion Chr6 22162961 22187007
Inversion Chr6 22187043 22425760 OsKitaake06g197000
Inversion Chr3 31767106 31952728 OsKitaake03g334800

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 871162 Chr10 17420836 OsKitaake10g118600
Translocation Chr11 871167 Chr10 17421210 OsKitaake10g118600
Translocation Chr6 22162972 Chr1 43609242 OsKitaake01g484300
Translocation Chr6 22163882 Chr1 43708229 OsKitaake01g486100
Translocation Chr3 22164749 Chr1 2077020 2
Translocation Chr3 22166453 Chr1 2077000 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12489967	T-C	Hetero	INTRON
SBS	Chr1	29584332	C-T	Hetero	INTERGENIC
SBS	Chr2	5738044	G-T	Hetero	INTERGENIC
SBS	Chr2	29997897	T-A	Hetero	INTERGENIC
SBS	Chr2	31139033	C-T	Hetero	INTERGENIC
SBS	Chr3	19839334	C-T	Homo	INTERGENIC
SBS	Chr3	22227578	C-T	Homo	INTERGENIC
SBS	Chr3	37672789	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g423200
SBS	Chr4	13912246	T-A	Hetero	INTERGENIC
SBS	Chr4	25562048	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g176500
SBS	Chr5	21730109	C-T	Hetero	INTERGENIC
SBS	Chr5	25008690	C-T	Hetero	INTERGENIC
SBS	Chr5	28583061	C-G	Hetero	INTERGENIC
SBS	Chr7	5596683	A-T	Hetero	INTRON
SBS	Chr7	5596684	G-A	Hetero	INTRON
SBS	Chr7	25889533	A-G	Hetero	INTERGENIC
SBS	Chr7	28884170	C-T	Hetero	INTERGENIC
SBS	Chr8	25010289	A-C	Hetero	INTERGENIC
SBS	Chr8	26282946	A-T	Hetero	INTERGENIC
SBS	Chr10	13389284	C-A	Hetero	INTRON
SBS	Chr10	15036635	C-T	Hetero	INTERGENIC
SBS	Chr10	15036636	C-T	Hetero	INTERGENIC
SBS	Chr10	15038290	A-C	Hetero	INTERGENIC
SBS	Chr11	964855	G-A	Hetero	INTERGENIC
SBS	Chr11	1750368	T-C	Hetero	INTERGENIC
SBS	Chr11	4638605	A-T	Hetero	INTERGENIC
SBS	Chr11	4638606	G-T	Hetero	INTERGENIC
SBS	Chr11	5468717	G-T	Hetero	INTERGENIC
SBS	Chr11	8937575	G-T	Hetero	INTERGENIC
SBS	Chr12	7688109	T-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	565001	599000	33999	2
Deletion	Chr6	7631309	7631311	2
Deletion	Chr4	13632001	13802000	169999	3
Deletion	Chr12	17029330	17029337	7
Deletion	Chr4	18466621	18466627	6
Deletion	Chr1	18854849	18854851	2
Deletion	Chr3	25064963	25064968	5
Deletion	Chr4	28748271	28748277	6	OsKitaake04g215500
Deletion	Chr3	30285094	30285095	1	OsKitaake03g317800
Deletion	Chr1	30564285	30564295	10	OsKitaake01g302500
Deletion	Chr4	33381349	33381358	9
Deletion	Chr1	40046575	40046583	8
Deletion	Chr1	43606001	43710000	103999	18

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	548774	566546	OsKitaake10g004100
Inversion	Chr10	602994	1306832
Inversion	Chr4	12876215	13633401	OsKitaake04g066000
Inversion	Chr4	12876223	13800782
Inversion	Chr6	22162961	22187007
Inversion	Chr6	22187043	22425760	OsKitaake06g197000
Inversion	Chr3	31767106	31952728	OsKitaake03g334800

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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