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Mutant Information

Mutant Name	FN2209-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2209-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 52

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 4240847 C-A Hetero INTERGENIC
SBS Chr1 5550521 A-G Hetero INTERGENIC
SBS Chr1 11161460 A-G Hetero INTERGENIC
SBS Chr1 22276392 C-A Homo SYNONYMOUS_CODING
SBS Chr1 34224877 G-A Hetero INTERGENIC
SBS Chr1 39413110 T-C Homo INTERGENIC
SBS Chr1 39834931 A-T Hetero INTERGENIC
SBS Chr1 39844594 G-A Homo INTRON
SBS Chr2 3459898 C-T Homo INTERGENIC
SBS Chr2 5991747 C-A Homo INTRON
SBS Chr2 12716358 C-A Hetero INTERGENIC
SBS Chr2 16035534 A-C Homo INTERGENIC
SBS Chr2 19911317 C-T Homo INTERGENIC
SBS Chr2 31434644 G-T Hetero INTERGENIC
SBS Chr3 4442095 T-A Hetero INTERGENIC
SBS Chr3 16618010 T-C Hetero INTERGENIC
SBS Chr3 19834755 G-T Hetero UTR_5_PRIME
SBS Chr3 20151929 C-T Hetero INTERGENIC
SBS Chr3 24039598 G-T Hetero INTERGENIC
SBS Chr3 26184970 C-A Hetero INTERGENIC
SBS Chr3 27828395 C-A Hetero INTRON
SBS Chr4 9125355 C-T Hetero INTERGENIC
SBS Chr4 12277745 C-T Hetero INTERGENIC
SBS Chr4 13679795 G-A Hetero INTERGENIC
SBS Chr4 27337990 G-T Hetero INTERGENIC
SBS Chr4 30978001 T-A Hetero INTERGENIC
SBS Chr4 33625355 C-A Hetero INTERGENIC
SBS Chr5 2166707 C-T Hetero INTERGENIC
SBS Chr5 13558046 T-C Homo INTRON
SBS Chr5 25287729 G-A Hetero INTERGENIC
SBS Chr6 9417825 A-G Hetero INTERGENIC
SBS Chr6 10881931 C-T Homo INTERGENIC
SBS Chr6 14573530 A-G Homo INTERGENIC
SBS Chr6 23300339 T-A Homo UTR_3_PRIME
SBS Chr6 26122463 G-A Hetero INTERGENIC
SBS Chr7 2237384 A-G Hetero INTERGENIC
SBS Chr7 6953009 C-G Hetero INTERGENIC
SBS Chr7 14591965 T-C Hetero INTERGENIC
SBS Chr8 16239960 C-T Homo INTERGENIC
SBS Chr8 18031145 C-A Hetero INTERGENIC
SBS Chr9 6913121 C-A Hetero INTERGENIC
SBS Chr9 9945580 C-A Hetero INTERGENIC
SBS Chr10 8419289 T-A Homo INTERGENIC
SBS Chr10 23733870 G-T Homo INTERGENIC
SBS Chr11 2634777 T-A Hetero INTERGENIC
SBS Chr11 8004506 G-A Hetero INTERGENIC
SBS Chr11 8776266 C-T Hetero INTERGENIC
SBS Chr11 10131207 A-G Hetero UTR_3_PRIME
SBS Chr11 14169986 G-A Hetero INTERGENIC
SBS Chr11 16305440 C-T Hetero INTERGENIC
SBS Chr11 16938488 G-A Hetero INTERGENIC
SBS Chr12 12187825 C-A Hetero INTERGENIC

Deletions: 20

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 18079 18081 2
Deletion Chr1 137993 137998 5
Deletion Chr1 1440770 1440771 1
Deletion Chr3 2778799 2778809 10
Deletion Chr5 3597696 3597699 3
Deletion Chr9 5621001 5679000 57999 OsKitaake09g032200
Deletion Chr11 12641742 12641744 2
Deletion Chr8 12898964 12898970 6
Deletion Chr7 13827267 13827271 4
Deletion Chr2 15377898 15377901 3
Deletion Chr8 16639001 16783000 143999 8
Deletion Chr2 17772604 17772617 13
Deletion Chr2 20603948 20603954 6
Deletion Chr2 22830622 22830624 2
Deletion Chr8 23231777 23231778 1 OsKitaake08g178500
Deletion Chr1 26214784 26214793 9
Deletion Chr7 27480580 27480706 126
Deletion Chr8 28613811 28613812 1
Deletion Chr4 33695353 33695356 3
Deletion Chr1 37152932 37152934 2

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 24265565 24265568 2
Insertion Chr12 8307041 8307044 2

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 5590946 6576121

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4240847	C-A	Hetero	INTERGENIC
SBS	Chr1	5550521	A-G	Hetero	INTERGENIC
SBS	Chr1	11161460	A-G	Hetero	INTERGENIC
SBS	Chr1	22276392	C-A	Homo	SYNONYMOUS_CODING
SBS	Chr1	34224877	G-A	Hetero	INTERGENIC
SBS	Chr1	39413110	T-C	Homo	INTERGENIC
SBS	Chr1	39834931	A-T	Hetero	INTERGENIC
SBS	Chr1	39844594	G-A	Homo	INTRON
SBS	Chr2	3459898	C-T	Homo	INTERGENIC
SBS	Chr2	5991747	C-A	Homo	INTRON
SBS	Chr2	12716358	C-A	Hetero	INTERGENIC
SBS	Chr2	16035534	A-C	Homo	INTERGENIC
SBS	Chr2	19911317	C-T	Homo	INTERGENIC
SBS	Chr2	31434644	G-T	Hetero	INTERGENIC
SBS	Chr3	4442095	T-A	Hetero	INTERGENIC
SBS	Chr3	16618010	T-C	Hetero	INTERGENIC
SBS	Chr3	19834755	G-T	Hetero	UTR_5_PRIME
SBS	Chr3	20151929	C-T	Hetero	INTERGENIC
SBS	Chr3	24039598	G-T	Hetero	INTERGENIC
SBS	Chr3	26184970	C-A	Hetero	INTERGENIC
SBS	Chr3	27828395	C-A	Hetero	INTRON
SBS	Chr4	9125355	C-T	Hetero	INTERGENIC
SBS	Chr4	12277745	C-T	Hetero	INTERGENIC
SBS	Chr4	13679795	G-A	Hetero	INTERGENIC
SBS	Chr4	27337990	G-T	Hetero	INTERGENIC
SBS	Chr4	30978001	T-A	Hetero	INTERGENIC
SBS	Chr4	33625355	C-A	Hetero	INTERGENIC
SBS	Chr5	2166707	C-T	Hetero	INTERGENIC
SBS	Chr5	13558046	T-C	Homo	INTRON
SBS	Chr5	25287729	G-A	Hetero	INTERGENIC
SBS	Chr6	9417825	A-G	Hetero	INTERGENIC
SBS	Chr6	10881931	C-T	Homo	INTERGENIC
SBS	Chr6	14573530	A-G	Homo	INTERGENIC
SBS	Chr6	23300339	T-A	Homo	UTR_3_PRIME
SBS	Chr6	26122463	G-A	Hetero	INTERGENIC
SBS	Chr7	2237384	A-G	Hetero	INTERGENIC
SBS	Chr7	6953009	C-G	Hetero	INTERGENIC
SBS	Chr7	14591965	T-C	Hetero	INTERGENIC
SBS	Chr8	16239960	C-T	Homo	INTERGENIC
SBS	Chr8	18031145	C-A	Hetero	INTERGENIC
SBS	Chr9	6913121	C-A	Hetero	INTERGENIC
SBS	Chr9	9945580	C-A	Hetero	INTERGENIC
SBS	Chr10	8419289	T-A	Homo	INTERGENIC
SBS	Chr10	23733870	G-T	Homo	INTERGENIC
SBS	Chr11	2634777	T-A	Hetero	INTERGENIC
SBS	Chr11	8004506	G-A	Hetero	INTERGENIC
SBS	Chr11	8776266	C-T	Hetero	INTERGENIC
SBS	Chr11	10131207	A-G	Hetero	UTR_3_PRIME
SBS	Chr11	14169986	G-A	Hetero	INTERGENIC
SBS	Chr11	16305440	C-T	Hetero	INTERGENIC
SBS	Chr11	16938488	G-A	Hetero	INTERGENIC
SBS	Chr12	12187825	C-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	18079	18081	2
Deletion	Chr1	137993	137998	5
Deletion	Chr1	1440770	1440771	1
Deletion	Chr3	2778799	2778809	10
Deletion	Chr5	3597696	3597699	3
Deletion	Chr9	5621001	5679000	57999	OsKitaake09g032200
Deletion	Chr11	12641742	12641744	2
Deletion	Chr8	12898964	12898970	6
Deletion	Chr7	13827267	13827271	4
Deletion	Chr2	15377898	15377901	3
Deletion	Chr8	16639001	16783000	143999	8
Deletion	Chr2	17772604	17772617	13
Deletion	Chr2	20603948	20603954	6
Deletion	Chr2	22830622	22830624	2
Deletion	Chr8	23231777	23231778	1	OsKitaake08g178500
Deletion	Chr1	26214784	26214793	9
Deletion	Chr7	27480580	27480706	126
Deletion	Chr8	28613811	28613812	1
Deletion	Chr4	33695353	33695356	3
Deletion	Chr1	37152932	37152934	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	5590946	6576121

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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