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Mutant Information

Mutant Name	FN829-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN829-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: 27

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 17679471 A-G Hetero INTRON
SBS Chr1 36631417 C-T Hetero INTERGENIC
SBS Chr1 37350032 C-T Hetero INTRON
SBS Chr2 7625691 A-C Hetero INTERGENIC
SBS Chr2 9406228 C-G Homo INTERGENIC
SBS Chr2 13252156 C-T Homo INTERGENIC
SBS Chr3 4804481 A-G Homo INTRON
SBS Chr3 5168592 C-A Hetero INTERGENIC
SBS Chr3 22637588 G-A Hetero INTERGENIC
SBS Chr3 22637589 G-A Hetero INTERGENIC
SBS Chr3 24489621 A-T Hetero INTRON
SBS Chr4 6894726 G-C Hetero INTERGENIC
SBS Chr4 9090831 C-T Hetero INTERGENIC
SBS Chr5 23020160 C-T Hetero INTERGENIC
SBS Chr5 29474596 A-T Hetero INTERGENIC
SBS Chr6 29605310 C-T Hetero INTERGENIC
SBS Chr7 12160712 A-T Homo INTERGENIC
SBS Chr7 23718392 A-T Hetero INTERGENIC
SBS Chr8 26315656 T-C Hetero INTERGENIC
SBS Chr8 26576928 A-T Hetero INTERGENIC
SBS Chr8 26977262 T-A Hetero INTERGENIC
SBS Chr9 18607029 T-C Homo NON_SYNONYMOUS_CODING OsKitaake09g146700
SBS Chr10 23633183 C-T Hetero INTERGENIC
SBS Chr11 4248604 C-T Hetero INTERGENIC
SBS Chr11 20704600 G-T Hetero INTERGENIC
SBS Chr12 8579233 A-G Hetero INTERGENIC
SBS Chr12 24584862 C-G Homo NON_SYNONYMOUS_CODING OsKitaake12g199101

Deletions: 10

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr8 2704318 2704327 9
Deletion Chr8 9285164 9285171 7
Deletion Chr8 10608777 10608779 2
Deletion Chr11 12717929 12717930 1
Deletion Chr11 15514866 15514872 6
Deletion Chr8 19124108 19124111 3
Deletion Chr11 19395001 19493000 97999 5
Deletion Chr1 21465659 21465660 1
Deletion Chr11 24277001 24378000 100999 5
Deletion Chr3 31923821 31923830 9

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 6876335 6876337 1
Insertion Chr7 17623716 17623719 2
Insertion Chr9 10512692 10512695 2
Insertion Chr3 16743903 16743905 1

Inversions: 6

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 3062389 3097091
Inversion Chr10 3062394 3097096
Inversion Chr8 17802876 18683111 2
Inversion Chr8 17803411 18683120 2
Inversion Chr3 21036172 21103553
Inversion Chr3 21036174 21103551

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	17679471	A-G	Hetero	INTRON
SBS	Chr1	36631417	C-T	Hetero	INTERGENIC
SBS	Chr1	37350032	C-T	Hetero	INTRON
SBS	Chr2	7625691	A-C	Hetero	INTERGENIC
SBS	Chr2	9406228	C-G	Homo	INTERGENIC
SBS	Chr2	13252156	C-T	Homo	INTERGENIC
SBS	Chr3	4804481	A-G	Homo	INTRON
SBS	Chr3	5168592	C-A	Hetero	INTERGENIC
SBS	Chr3	22637588	G-A	Hetero	INTERGENIC
SBS	Chr3	22637589	G-A	Hetero	INTERGENIC
SBS	Chr3	24489621	A-T	Hetero	INTRON
SBS	Chr4	6894726	G-C	Hetero	INTERGENIC
SBS	Chr4	9090831	C-T	Hetero	INTERGENIC
SBS	Chr5	23020160	C-T	Hetero	INTERGENIC
SBS	Chr5	29474596	A-T	Hetero	INTERGENIC
SBS	Chr6	29605310	C-T	Hetero	INTERGENIC
SBS	Chr7	12160712	A-T	Homo	INTERGENIC
SBS	Chr7	23718392	A-T	Hetero	INTERGENIC
SBS	Chr8	26315656	T-C	Hetero	INTERGENIC
SBS	Chr8	26576928	A-T	Hetero	INTERGENIC
SBS	Chr8	26977262	T-A	Hetero	INTERGENIC
SBS	Chr9	18607029	T-C	Homo	NON_SYNONYMOUS_CODING	OsKitaake09g146700
SBS	Chr10	23633183	C-T	Hetero	INTERGENIC
SBS	Chr11	4248604	C-T	Hetero	INTERGENIC
SBS	Chr11	20704600	G-T	Hetero	INTERGENIC
SBS	Chr12	8579233	A-G	Hetero	INTERGENIC
SBS	Chr12	24584862	C-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake12g199101

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr8	2704318	2704327	9
Deletion	Chr8	9285164	9285171	7
Deletion	Chr8	10608777	10608779	2
Deletion	Chr11	12717929	12717930	1
Deletion	Chr11	15514866	15514872	6
Deletion	Chr8	19124108	19124111	3
Deletion	Chr11	19395001	19493000	97999	5
Deletion	Chr1	21465659	21465660	1
Deletion	Chr11	24277001	24378000	100999	5
Deletion	Chr3	31923821	31923830	9

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	3062389	3097091
Inversion	Chr10	3062394	3097096
Inversion	Chr8	17802876	18683111	2
Inversion	Chr8	17803411	18683120	2
Inversion	Chr3	21036172	21103553
Inversion	Chr3	21036174	21103551

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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