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Mutant Information

Mutant Name	FN1640-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1640-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 39

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1917044 C-T Homo INTERGENIC
SBS Chr1 2697507 C-A Homo INTRON
SBS Chr1 7267251 G-A Hetero INTERGENIC
SBS Chr1 7784489 C-T Hetero INTERGENIC
SBS Chr1 35456255 C-T Homo INTERGENIC
SBS Chr2 1965143 A-G Homo INTERGENIC
SBS Chr2 8975564 A-T Hetero INTERGENIC
SBS Chr2 21895650 T-A Hetero INTERGENIC
SBS Chr3 16773620 G-T Hetero INTERGENIC
SBS Chr3 34685834 C-T Homo INTERGENIC
SBS Chr4 2174861 G-T Homo INTERGENIC
SBS Chr4 23029924 T-C Hetero INTERGENIC
SBS Chr4 28958772 C-T Hetero INTERGENIC
SBS Chr4 33375427 C-A Hetero INTRON
SBS Chr5 12330790 G-A Hetero INTERGENIC
SBS Chr6 2466160 C-T Hetero INTERGENIC
SBS Chr6 14912305 G-A Homo INTERGENIC
SBS Chr6 17287692 T-A Homo INTRON
SBS Chr7 11929539 T-A Hetero INTERGENIC
SBS Chr7 21416288 G-A Hetero INTERGENIC
SBS Chr7 23786479 A-G Hetero INTRON
SBS Chr8 7161851 T-A Homo INTERGENIC
SBS Chr8 9356272 A-C Hetero INTERGENIC
SBS Chr8 25299721 G-A Hetero INTERGENIC
SBS Chr9 17569475 G-T Hetero UTR_3_PRIME
SBS Chr9 17569476 G-T Hetero UTR_3_PRIME
SBS Chr9 18733556 A-G Homo INTERGENIC
SBS Chr9 20840942 G-T Hetero INTERGENIC
SBS Chr10 19589292 T-A Hetero UTR_3_PRIME
SBS Chr10 19589293 C-A Hetero UTR_3_PRIME
SBS Chr11 2548380 T-G Hetero INTERGENIC
SBS Chr11 3422056 T-C Hetero INTERGENIC
SBS Chr11 7161687 C-G Hetero INTERGENIC
SBS Chr11 7843544 G-A Hetero START_GAINED
SBS Chr11 12722026 C-A Hetero INTERGENIC
SBS Chr11 13656767 T-C Hetero INTERGENIC
SBS Chr11 13656772 T-G Hetero INTERGENIC
SBS Chr12 1627045 G-A Hetero INTRON
SBS Chr12 21227577 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake12g166900

Deletions: 10

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr3 8344001 8434000 89999 11
Deletion Chr4 9079381 9079388 7
Deletion Chr4 11721632 11721634 2
Deletion Chr5 12394221 12394224 3
Deletion Chr7 15184669 15184670 1
Deletion Chr5 15426733 15426735 2 OsKitaake05g118300
Deletion Chr12 18656926 18656941 15
Deletion Chr1 32668062 32668063 1
Deletion Chr1 34862590 34862599 9
Deletion Chr2 36986431 36986434 3 OsKitaake02g396600

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 23188670 23188673 2
Insertion Chr3 26634863 26634866 2
Insertion Chr8 16521293 16521296 2

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr1 7687553 8447762
Inversion Chr1 7687562 8447770
Inversion Chr1 7977547 7977834
Inversion Chr9 8783206 8783656

Translocations: 5

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 12744223 Chr4 19749353
Translocation Chr9 12744234 Chr4 19749135
Translocation Chr8 16201343 Chr3 20199299 OsKitaake03g230400
Translocation Chr8 16201716 Chr3 20199287 OsKitaake03g230400
Translocation Chr11 16573482 Chr3 8342157

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1917044	C-T	Homo	INTERGENIC
SBS	Chr1	2697507	C-A	Homo	INTRON
SBS	Chr1	7267251	G-A	Hetero	INTERGENIC
SBS	Chr1	7784489	C-T	Hetero	INTERGENIC
SBS	Chr1	35456255	C-T	Homo	INTERGENIC
SBS	Chr2	1965143	A-G	Homo	INTERGENIC
SBS	Chr2	8975564	A-T	Hetero	INTERGENIC
SBS	Chr2	21895650	T-A	Hetero	INTERGENIC
SBS	Chr3	16773620	G-T	Hetero	INTERGENIC
SBS	Chr3	34685834	C-T	Homo	INTERGENIC
SBS	Chr4	2174861	G-T	Homo	INTERGENIC
SBS	Chr4	23029924	T-C	Hetero	INTERGENIC
SBS	Chr4	28958772	C-T	Hetero	INTERGENIC
SBS	Chr4	33375427	C-A	Hetero	INTRON
SBS	Chr5	12330790	G-A	Hetero	INTERGENIC
SBS	Chr6	2466160	C-T	Hetero	INTERGENIC
SBS	Chr6	14912305	G-A	Homo	INTERGENIC
SBS	Chr6	17287692	T-A	Homo	INTRON
SBS	Chr7	11929539	T-A	Hetero	INTERGENIC
SBS	Chr7	21416288	G-A	Hetero	INTERGENIC
SBS	Chr7	23786479	A-G	Hetero	INTRON
SBS	Chr8	7161851	T-A	Homo	INTERGENIC
SBS	Chr8	9356272	A-C	Hetero	INTERGENIC
SBS	Chr8	25299721	G-A	Hetero	INTERGENIC
SBS	Chr9	17569475	G-T	Hetero	UTR_3_PRIME
SBS	Chr9	17569476	G-T	Hetero	UTR_3_PRIME
SBS	Chr9	18733556	A-G	Homo	INTERGENIC
SBS	Chr9	20840942	G-T	Hetero	INTERGENIC
SBS	Chr10	19589292	T-A	Hetero	UTR_3_PRIME
SBS	Chr10	19589293	C-A	Hetero	UTR_3_PRIME
SBS	Chr11	2548380	T-G	Hetero	INTERGENIC
SBS	Chr11	3422056	T-C	Hetero	INTERGENIC
SBS	Chr11	7161687	C-G	Hetero	INTERGENIC
SBS	Chr11	7843544	G-A	Hetero	START_GAINED
SBS	Chr11	12722026	C-A	Hetero	INTERGENIC
SBS	Chr11	13656767	T-C	Hetero	INTERGENIC
SBS	Chr11	13656772	T-G	Hetero	INTERGENIC
SBS	Chr12	1627045	G-A	Hetero	INTRON
SBS	Chr12	21227577	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake12g166900

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr3	8344001	8434000	89999	11
Deletion	Chr4	9079381	9079388	7
Deletion	Chr4	11721632	11721634	2
Deletion	Chr5	12394221	12394224	3
Deletion	Chr7	15184669	15184670	1
Deletion	Chr5	15426733	15426735	2	OsKitaake05g118300
Deletion	Chr12	18656926	18656941	15
Deletion	Chr1	32668062	32668063	1
Deletion	Chr1	34862590	34862599	9
Deletion	Chr2	36986431	36986434	3	OsKitaake02g396600

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	7687553	8447762
Inversion	Chr1	7687562	8447770
Inversion	Chr1	7977547	7977834
Inversion	Chr9	8783206	8783656

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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