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Mutant Information

Mutant Name	FN690-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN690-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 33

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 5089027 A-G Hetero INTERGENIC
SBS Chr1 5092491 G-C Hetero INTERGENIC
SBS Chr1 7068626 A-T Hetero INTERGENIC
SBS Chr1 8295995 T-C Hetero INTERGENIC
SBS Chr1 22847124 G-A Homo INTERGENIC
SBS Chr1 23825604 G-T Homo INTERGENIC
SBS Chr1 24826868 C-G Homo NON_SYNONYMOUS_CODING OsKitaake01g239800
SBS Chr1 42255890 C-G Hetero NON_SYNONYMOUS_CODING OsKitaake01g465500
SBS Chr2 1150981 C-T Homo SYNONYMOUS_CODING
SBS Chr2 19686379 A-T Homo INTERGENIC
SBS Chr3 14022465 A-G Homo INTERGENIC
SBS Chr3 27262955 G-A Homo INTERGENIC
SBS Chr3 32075779 T-C Homo INTERGENIC
SBS Chr4 1253523 C-A Homo INTRON
SBS Chr4 9508067 T-A Hetero INTERGENIC
SBS Chr4 30433774 A-T Homo INTERGENIC
SBS Chr4 33218902 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake04g270900
SBS Chr5 5965920 T-C Hetero UTR_3_PRIME
SBS Chr5 14176902 G-A Hetero INTERGENIC
SBS Chr5 22411797 G-C Hetero INTERGENIC
SBS Chr6 13474512 C-T Hetero INTERGENIC
SBS Chr8 16834839 G-A Hetero INTERGENIC
SBS Chr8 18191760 C-T Homo INTERGENIC
SBS Chr8 24893257 C-G Hetero INTERGENIC
SBS Chr9 5271853 G-A Hetero INTERGENIC
SBS Chr10 6234813 C-A Hetero INTERGENIC
SBS Chr11 5973210 C-T Homo NON_SYNONYMOUS_CODING OsKitaake11g072700
SBS Chr11 26717886 G-A Hetero INTERGENIC
SBS Chr11 27198334 G-A Hetero INTERGENIC
SBS Chr12 4486603 A-T Hetero INTERGENIC
SBS Chr12 5077826 C-T Hetero INTERGENIC
SBS Chr12 7853946 T-A Hetero INTERGENIC
SBS Chr12 20286192 C-T Homo INTERGENIC

Deletions: 14

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 5042834 5042835 1
Deletion Chr4 5513773 5513776 3
Deletion Chr2 6047981 6047982 1
Deletion Chr2 6072610 6072617 7
Deletion Chr2 6120615 6120619 4
Deletion Chr4 6966770 6966781 11
Deletion Chr9 7641682 7641683 1
Deletion Chr10 12263988 12263989 1
Deletion Chr12 12504959 12504962 3
Deletion Chr7 14165128 14165146 18
Deletion Chr12 21304388 21304390 2
Deletion Chr2 25239265 25239287 22 OsKitaake02g248600
Deletion Chr3 27315041 27315042 1
Deletion Chr3 27835779 27835781 2

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 28955416 28955422 5
Insertion Chr5 29143039 29143042 2
Insertion Chr8 1309670 1309673 2
Insertion Chr9 17788069 17788072 2
Insertion Chr10 19774670 19774673 2

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr8 3095807 Chr5 5361423
Translocation Chr8 3095828 Chr5 5361550
Translocation Chr7 13972658 Chr3 23248495
Translocation Chr7 13978973 Chr3 23248470

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	5089027	A-G	Hetero	INTERGENIC
SBS	Chr1	5092491	G-C	Hetero	INTERGENIC
SBS	Chr1	7068626	A-T	Hetero	INTERGENIC
SBS	Chr1	8295995	T-C	Hetero	INTERGENIC
SBS	Chr1	22847124	G-A	Homo	INTERGENIC
SBS	Chr1	23825604	G-T	Homo	INTERGENIC
SBS	Chr1	24826868	C-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g239800
SBS	Chr1	42255890	C-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g465500
SBS	Chr2	1150981	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr2	19686379	A-T	Homo	INTERGENIC
SBS	Chr3	14022465	A-G	Homo	INTERGENIC
SBS	Chr3	27262955	G-A	Homo	INTERGENIC
SBS	Chr3	32075779	T-C	Homo	INTERGENIC
SBS	Chr4	1253523	C-A	Homo	INTRON
SBS	Chr4	9508067	T-A	Hetero	INTERGENIC
SBS	Chr4	30433774	A-T	Homo	INTERGENIC
SBS	Chr4	33218902	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g270900
SBS	Chr5	5965920	T-C	Hetero	UTR_3_PRIME
SBS	Chr5	14176902	G-A	Hetero	INTERGENIC
SBS	Chr5	22411797	G-C	Hetero	INTERGENIC
SBS	Chr6	13474512	C-T	Hetero	INTERGENIC
SBS	Chr8	16834839	G-A	Hetero	INTERGENIC
SBS	Chr8	18191760	C-T	Homo	INTERGENIC
SBS	Chr8	24893257	C-G	Hetero	INTERGENIC
SBS	Chr9	5271853	G-A	Hetero	INTERGENIC
SBS	Chr10	6234813	C-A	Hetero	INTERGENIC
SBS	Chr11	5973210	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake11g072700
SBS	Chr11	26717886	G-A	Hetero	INTERGENIC
SBS	Chr11	27198334	G-A	Hetero	INTERGENIC
SBS	Chr12	4486603	A-T	Hetero	INTERGENIC
SBS	Chr12	5077826	C-T	Hetero	INTERGENIC
SBS	Chr12	7853946	T-A	Hetero	INTERGENIC
SBS	Chr12	20286192	C-T	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	5042834	5042835	1
Deletion	Chr4	5513773	5513776	3
Deletion	Chr2	6047981	6047982	1
Deletion	Chr2	6072610	6072617	7
Deletion	Chr2	6120615	6120619	4
Deletion	Chr4	6966770	6966781	11
Deletion	Chr9	7641682	7641683	1
Deletion	Chr10	12263988	12263989	1
Deletion	Chr12	12504959	12504962	3
Deletion	Chr7	14165128	14165146	18
Deletion	Chr12	21304388	21304390	2
Deletion	Chr2	25239265	25239287	22	OsKitaake02g248600
Deletion	Chr3	27315041	27315042	1
Deletion	Chr3	27835779	27835781	2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	3095807	Chr5	5361423
Translocation	Chr8	3095828	Chr5	5361550
Translocation	Chr7	13972658	Chr3	23248495
Translocation	Chr7	13978973	Chr3	23248470

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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

Chromosome

Position 2

Number of Genes