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Mutant Information

Mutant Name	FN-98 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-98 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:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 26

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1434964 C-A Homo INTERGENIC
SBS Chr2 830120 G-A Hetero INTERGENIC
SBS Chr2 4742888 T-C Homo INTRON
SBS Chr2 8683472 T-C Homo INTRON
SBS Chr2 26965865 C-A Homo INTERGENIC
SBS Chr3 28398636 T-A Hetero INTERGENIC
SBS Chr3 32718941 T-G Homo UTR_3_PRIME
SBS Chr4 23775177 G-A Homo INTRON
SBS Chr4 24861197 G-A Homo INTRON
SBS Chr4 27479145 C-T Homo INTERGENIC
SBS Chr4 34997322 G-T Hetero INTERGENIC
SBS Chr5 4357489 C-A Homo INTERGENIC
SBS Chr5 4357490 A-G Homo INTERGENIC
SBS Chr6 2663243 C-T Homo INTERGENIC
SBS Chr6 13677743 C-T Hetero INTERGENIC
SBS Chr7 6349071 A-T Hetero INTERGENIC
SBS Chr7 14519600 A-C Homo INTERGENIC
SBS Chr9 9692588 A-C Homo INTRON
SBS Chr9 11773423 T-C Hetero INTERGENIC
SBS Chr9 14577287 G-A Hetero SYNONYMOUS_CODING
SBS Chr10 9574248 C-T Hetero INTERGENIC
SBS Chr11 14186722 T-C Hetero INTERGENIC
SBS Chr11 14186723 C-A Hetero INTERGENIC
SBS Chr12 1981510 C-T Homo INTERGENIC
SBS Chr12 19420031 A-C Hetero INTERGENIC
SBS Chr12 22476135 C-T Hetero INTRON

Deletions: 12

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 1815716 1815717 1
Deletion Chr1 3226120 3226212 92
Deletion Chr5 4812835 4812845 10
Deletion Chr11 5532166 5532210 44
Deletion Chr10 7846643 7846973 330
Deletion Chr2 9760723 9760724 1
Deletion Chr1 11015393 11015395 2
Deletion Chr9 21067001 21079000 11999 3
Deletion Chr2 22802001 22850000 47999 6
Deletion Chr6 27715261 27715263 2
Deletion Chr5 28624604 28624606 2
Deletion Chr5 30237084 30237437 353

Insertions: 1

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 16285087 16285090 2

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 8677227 8776104 OsKitaake02g110400

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1434964	C-A	Homo	INTERGENIC
SBS	Chr2	830120	G-A	Hetero	INTERGENIC
SBS	Chr2	4742888	T-C	Homo	INTRON
SBS	Chr2	8683472	T-C	Homo	INTRON
SBS	Chr2	26965865	C-A	Homo	INTERGENIC
SBS	Chr3	28398636	T-A	Hetero	INTERGENIC
SBS	Chr3	32718941	T-G	Homo	UTR_3_PRIME
SBS	Chr4	23775177	G-A	Homo	INTRON
SBS	Chr4	24861197	G-A	Homo	INTRON
SBS	Chr4	27479145	C-T	Homo	INTERGENIC
SBS	Chr4	34997322	G-T	Hetero	INTERGENIC
SBS	Chr5	4357489	C-A	Homo	INTERGENIC
SBS	Chr5	4357490	A-G	Homo	INTERGENIC
SBS	Chr6	2663243	C-T	Homo	INTERGENIC
SBS	Chr6	13677743	C-T	Hetero	INTERGENIC
SBS	Chr7	6349071	A-T	Hetero	INTERGENIC
SBS	Chr7	14519600	A-C	Homo	INTERGENIC
SBS	Chr9	9692588	A-C	Homo	INTRON
SBS	Chr9	11773423	T-C	Hetero	INTERGENIC
SBS	Chr9	14577287	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr10	9574248	C-T	Hetero	INTERGENIC
SBS	Chr11	14186722	T-C	Hetero	INTERGENIC
SBS	Chr11	14186723	C-A	Hetero	INTERGENIC
SBS	Chr12	1981510	C-T	Homo	INTERGENIC
SBS	Chr12	19420031	A-C	Hetero	INTERGENIC
SBS	Chr12	22476135	C-T	Hetero	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	1815716	1815717	1
Deletion	Chr1	3226120	3226212	92
Deletion	Chr5	4812835	4812845	10
Deletion	Chr11	5532166	5532210	44
Deletion	Chr10	7846643	7846973	330
Deletion	Chr2	9760723	9760724	1
Deletion	Chr1	11015393	11015395	2
Deletion	Chr9	21067001	21079000	11999	3
Deletion	Chr2	22802001	22850000	47999	6
Deletion	Chr6	27715261	27715263	2
Deletion	Chr5	28624604	28624606	2
Deletion	Chr5	30237084	30237437	353

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	8677227	8776104	OsKitaake02g110400

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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