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Mutant Information

Mutant Name	FN-96 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-96 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
Phenotype Changes (Hover to Zoom-In)

Variant Information

Single base substitutions: 16

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 6316260 A-G Homo INTERGENIC
SBS Chr1 36065497 G-A Hetero INTERGENIC
SBS Chr2 15308576 A-G Hetero INTERGENIC
SBS Chr3 16701079 C-T Hetero INTERGENIC
SBS Chr3 21167794 T-A Hetero NON_SYNONYMOUS_CODING OsKitaake03g234500
SBS Chr3 32833044 A-T Homo INTERGENIC
SBS Chr4 22141887 A-T Homo INTERGENIC
SBS Chr4 24852057 G-T Homo INTERGENIC
SBS Chr4 36923791 A-T Hetero INTERGENIC
SBS Chr5 16593271 G-A Hetero INTERGENIC
SBS Chr6 9929181 C-T Homo INTERGENIC
SBS Chr8 13119628 T-C Homo INTERGENIC
SBS Chr9 2332432 G-T Hetero INTERGENIC
SBS Chr10 5779423 T-C Hetero INTERGENIC
SBS Chr11 6887440 T-C Homo INTERGENIC
SBS Chr11 20258459 C-T Homo INTERGENIC

Deletions: 18

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 1494207 1494213 6
Deletion Chr4 3166716 3166718 2 OsKitaake04g016775
Deletion Chr4 5462092 5462095 3
Deletion Chr4 7054969 7054970 1
Deletion Chr9 8756621 8756623 2
Deletion Chr12 9057067 9057069 2
Deletion Chr6 9539295 9539299 4
Deletion Chr1 10644112 10644114 2 OsKitaake01g132100
Deletion Chr3 12849761 12849763 2
Deletion Chr7 12991964 12992031 67
Deletion Chr5 15429295 15429297 2
Deletion Chr3 16214000 16214085 85
Deletion Chr6 18440580 18440585 5
Deletion Chr11 21167353 21167364 11
Deletion Chr10 21943879 21943880 1 OsKitaake10g177200
Deletion Chr11 24342192 24342230 38
Deletion Chr4 24598146 24598148 2
Deletion Chr2 29431343 29431345 2

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 6796016 6796019 2 OsKitaake04g034700
Insertion Chr5 12402355 12402357 1
Insertion Chr7 12005937 12005940 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	6316260	A-G	Homo	INTERGENIC
SBS	Chr1	36065497	G-A	Hetero	INTERGENIC
SBS	Chr2	15308576	A-G	Hetero	INTERGENIC
SBS	Chr3	16701079	C-T	Hetero	INTERGENIC
SBS	Chr3	21167794	T-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g234500
SBS	Chr3	32833044	A-T	Homo	INTERGENIC
SBS	Chr4	22141887	A-T	Homo	INTERGENIC
SBS	Chr4	24852057	G-T	Homo	INTERGENIC
SBS	Chr4	36923791	A-T	Hetero	INTERGENIC
SBS	Chr5	16593271	G-A	Hetero	INTERGENIC
SBS	Chr6	9929181	C-T	Homo	INTERGENIC
SBS	Chr8	13119628	T-C	Homo	INTERGENIC
SBS	Chr9	2332432	G-T	Hetero	INTERGENIC
SBS	Chr10	5779423	T-C	Hetero	INTERGENIC
SBS	Chr11	6887440	T-C	Homo	INTERGENIC
SBS	Chr11	20258459	C-T	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	1494207	1494213	6
Deletion	Chr4	3166716	3166718	2	OsKitaake04g016775
Deletion	Chr4	5462092	5462095	3
Deletion	Chr4	7054969	7054970	1
Deletion	Chr9	8756621	8756623	2
Deletion	Chr12	9057067	9057069	2
Deletion	Chr6	9539295	9539299	4
Deletion	Chr1	10644112	10644114	2	OsKitaake01g132100
Deletion	Chr3	12849761	12849763	2
Deletion	Chr7	12991964	12992031	67
Deletion	Chr5	15429295	15429297	2
Deletion	Chr3	16214000	16214085	85
Deletion	Chr6	18440580	18440585	5
Deletion	Chr11	21167353	21167364	11
Deletion	Chr10	21943879	21943880	1	OsKitaake10g177200
Deletion	Chr11	24342192	24342230	38
Deletion	Chr4	24598146	24598148	2
Deletion	Chr2	29431343	29431345	2

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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