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Mutant Information

Mutant Name	FN828-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN828-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: 32

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 332056 G-C Homo INTERGENIC
SBS Chr1 13193597 C-A Hetero INTERGENIC
SBS Chr1 18360952 C-T Homo SYNONYMOUS_CODING
SBS Chr1 29765450 C-T Hetero INTERGENIC
SBS Chr2 19869707 C-T Hetero INTRON
SBS Chr2 23422435 T-C Hetero INTERGENIC
SBS Chr2 35985416 G-C Hetero INTERGENIC
SBS Chr3 5158836 T-C Hetero INTERGENIC
SBS Chr3 11147176 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake03g153100
SBS Chr3 16103312 C-T Hetero INTERGENIC
SBS Chr3 19105757 G-C Hetero INTERGENIC
SBS Chr3 27343772 C-A Hetero INTERGENIC
SBS Chr3 30084677 A-G Homo INTERGENIC
SBS Chr4 5634969 G-A Homo INTERGENIC
SBS Chr4 15842204 G-A Homo INTERGENIC
SBS Chr4 16125734 C-T Homo INTERGENIC
SBS Chr5 3848813 C-T Homo INTERGENIC
SBS Chr5 4494933 A-G Hetero INTERGENIC
SBS Chr6 1757889 G-A Homo INTERGENIC
SBS Chr6 1757890 C-A Homo INTERGENIC
SBS Chr6 8733068 G-C Homo INTERGENIC
SBS Chr6 12900527 G-A Hetero INTERGENIC
SBS Chr6 17401398 C-T Hetero INTERGENIC
SBS Chr6 23008330 A-T Hetero INTERGENIC
SBS Chr7 19778388 C-T Homo INTRON
SBS Chr9 5757880 G-A Hetero INTERGENIC
SBS Chr10 2014078 G-A Hetero INTERGENIC
SBS Chr10 8872269 C-G Hetero INTERGENIC
SBS Chr10 14117726 A-T Homo INTERGENIC
SBS Chr11 3919275 A-T Hetero NON_SYNONYMOUS_CODING OsKitaake11g053900
SBS Chr11 12945191 C-T Homo INTERGENIC
SBS Chr11 22402824 T-C Homo INTERGENIC

Deletions: 12

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 4098451 4098455 4
Deletion Chr10 5260395 5260396 1
Deletion Chr11 7362906 7362908 2
Deletion Chr10 10556428 10556432 4
Deletion Chr8 13564697 13564700 3
Deletion Chr6 17179119 17179121 2
Deletion Chr2 21343198 21343205 7
Deletion Chr5 24321794 24321795 1
Deletion Chr5 24689160 24689163 3
Deletion Chr6 25467552 25467558 6
Deletion Chr8 28506548 28506550 2
Deletion Chr2 32150780 32150781 1

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 20093842 20093845 2
Insertion Chr3 27865518 27865521 2
Insertion Chr11 12641742 12641745 2
Insertion Chr12 19828679 19828682 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr3 24883555 25458087 OsKitaake03g264700
Inversion Chr3 24883566 25458100 OsKitaake03g264700

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	332056	G-C	Homo	INTERGENIC
SBS	Chr1	13193597	C-A	Hetero	INTERGENIC
SBS	Chr1	18360952	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr1	29765450	C-T	Hetero	INTERGENIC
SBS	Chr2	19869707	C-T	Hetero	INTRON
SBS	Chr2	23422435	T-C	Hetero	INTERGENIC
SBS	Chr2	35985416	G-C	Hetero	INTERGENIC
SBS	Chr3	5158836	T-C	Hetero	INTERGENIC
SBS	Chr3	11147176	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g153100
SBS	Chr3	16103312	C-T	Hetero	INTERGENIC
SBS	Chr3	19105757	G-C	Hetero	INTERGENIC
SBS	Chr3	27343772	C-A	Hetero	INTERGENIC
SBS	Chr3	30084677	A-G	Homo	INTERGENIC
SBS	Chr4	5634969	G-A	Homo	INTERGENIC
SBS	Chr4	15842204	G-A	Homo	INTERGENIC
SBS	Chr4	16125734	C-T	Homo	INTERGENIC
SBS	Chr5	3848813	C-T	Homo	INTERGENIC
SBS	Chr5	4494933	A-G	Hetero	INTERGENIC
SBS	Chr6	1757889	G-A	Homo	INTERGENIC
SBS	Chr6	1757890	C-A	Homo	INTERGENIC
SBS	Chr6	8733068	G-C	Homo	INTERGENIC
SBS	Chr6	12900527	G-A	Hetero	INTERGENIC
SBS	Chr6	17401398	C-T	Hetero	INTERGENIC
SBS	Chr6	23008330	A-T	Hetero	INTERGENIC
SBS	Chr7	19778388	C-T	Homo	INTRON
SBS	Chr9	5757880	G-A	Hetero	INTERGENIC
SBS	Chr10	2014078	G-A	Hetero	INTERGENIC
SBS	Chr10	8872269	C-G	Hetero	INTERGENIC
SBS	Chr10	14117726	A-T	Homo	INTERGENIC
SBS	Chr11	3919275	A-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g053900
SBS	Chr11	12945191	C-T	Homo	INTERGENIC
SBS	Chr11	22402824	T-C	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	4098451	4098455	4
Deletion	Chr10	5260395	5260396	1
Deletion	Chr11	7362906	7362908	2
Deletion	Chr10	10556428	10556432	4
Deletion	Chr8	13564697	13564700	3
Deletion	Chr6	17179119	17179121	2
Deletion	Chr2	21343198	21343205	7
Deletion	Chr5	24321794	24321795	1
Deletion	Chr5	24689160	24689163	3
Deletion	Chr6	25467552	25467558	6
Deletion	Chr8	28506548	28506550	2
Deletion	Chr2	32150780	32150781	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	24883555	25458087	OsKitaake03g264700
Inversion	Chr3	24883566	25458100	OsKitaake03g264700

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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