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Mutant Information

Mutant Name	FN3959-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN3959-S Alignment File
Seed Availability	Yes [Order Seeds]

Variant Information

Single base substitutions: 17

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr3 3536009 C-G Homo INTRON
SBS Chr3 7349743 A-G Hetero INTERGENIC
SBS Chr3 25614119 C-T Hetero INTRON
SBS Chr4 34567185 C-T Homo INTRON
SBS Chr4 36868943 A-T Homo INTERGENIC
SBS Chr5 28959644 A-T Homo INTERGENIC
SBS Chr6 14420110 G-T Hetero INTERGENIC
SBS Chr6 23895946 T-A Homo NON_SYNONYMOUS_CODING OsKitaake06g211400
SBS Chr7 6032289 C-T Homo INTERGENIC
SBS Chr8 26357421 G-C Hetero SPLICE_SITE_ACCEPTOR OsKitaake08g211400
SBS Chr9 12871933 A-T Hetero INTERGENIC
SBS Chr10 3152342 A-G Hetero INTERGENIC
SBS Chr10 4875979 G-A Hetero INTERGENIC
SBS Chr10 8154205 T-C Hetero INTERGENIC
SBS Chr11 15441991 C-G Homo INTERGENIC
SBS Chr12 10698629 C-T Homo INTERGENIC
SBS Chr12 20209263 G-A Homo INTERGENIC

Deletions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr7 2287014 2287015 1
Deletion Chr6 6167495 6167497 2
Deletion Chr5 9309408 9309413 5
Deletion Chr7 13721001 13728000 6999
Deletion Chr5 25687491 25687504 13

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 10699739 10699742 2
Insertion Chr9 15014251 15014254 2 OsKitaake09g103700
Insertion Chr6 7853292 7853295 2

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr7 637823 1052427 OsKitaake07g014000
Inversion Chr7 637831 1055236
Inversion Chr4 20235573 21103983
Inversion Chr4 20235581 21103998

Translocations: 5

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr3 7003574 Chr1 25346877 2
Translocation Chr3 7003575 Chr1 25347643 2
Translocation Chr8 21960079 Chr1 25346873 OsKitaake01g245500
Translocation Chr11 26869376 Chr7 13214031 OsKitaake11g218500
Translocation Chr11 26869380 Chr7 13213047 OsKitaake11g218500

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr3	3536009	C-G	Homo	INTRON
SBS	Chr3	7349743	A-G	Hetero	INTERGENIC
SBS	Chr3	25614119	C-T	Hetero	INTRON
SBS	Chr4	34567185	C-T	Homo	INTRON
SBS	Chr4	36868943	A-T	Homo	INTERGENIC
SBS	Chr5	28959644	A-T	Homo	INTERGENIC
SBS	Chr6	14420110	G-T	Hetero	INTERGENIC
SBS	Chr6	23895946	T-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake06g211400
SBS	Chr7	6032289	C-T	Homo	INTERGENIC
SBS	Chr8	26357421	G-C	Hetero	SPLICE_SITE_ACCEPTOR	OsKitaake08g211400
SBS	Chr9	12871933	A-T	Hetero	INTERGENIC
SBS	Chr10	3152342	A-G	Hetero	INTERGENIC
SBS	Chr10	4875979	G-A	Hetero	INTERGENIC
SBS	Chr10	8154205	T-C	Hetero	INTERGENIC
SBS	Chr11	15441991	C-G	Homo	INTERGENIC
SBS	Chr12	10698629	C-T	Homo	INTERGENIC
SBS	Chr12	20209263	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr7	2287014	2287015	1
Deletion	Chr6	6167495	6167497	2
Deletion	Chr5	9309408	9309413	5
Deletion	Chr7	13721001	13728000	6999
Deletion	Chr5	25687491	25687504	13

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	637823	1052427	OsKitaake07g014000
Inversion	Chr7	637831	1055236
Inversion	Chr4	20235573	21103983
Inversion	Chr4	20235581	21103998

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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

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes