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Mutant Information

Mutant Name	FN1647-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1647-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) = Low (Between 25% and 75%) 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 3382775 C-A Hetero INTERGENIC
SBS Chr1 22754295 C-G Hetero INTERGENIC
SBS Chr1 33528635 G-A Hetero INTRON
SBS Chr1 33838611 C-A Hetero INTERGENIC
SBS Chr2 1960897 C-G Hetero INTERGENIC
SBS Chr2 4316836 T-A Homo INTERGENIC
SBS Chr2 32002310 C-T Hetero INTERGENIC
SBS Chr3 5769613 T-C Hetero NON_SYNONYMOUS_CODING OsKitaake03g081800
SBS Chr3 15788187 A-G Homo INTERGENIC
SBS Chr4 2144348 C-T Hetero INTERGENIC
SBS Chr4 2370529 G-A Hetero INTRON
SBS Chr4 2370530 C-A Hetero INTRON
SBS Chr4 11319222 C-T Hetero INTERGENIC
SBS Chr4 23151048 G-A Homo INTERGENIC
SBS Chr5 9534862 C-A Homo INTERGENIC
SBS Chr5 9534863 C-A Homo INTERGENIC
SBS Chr6 20069090 C-T Hetero INTERGENIC
SBS Chr6 22094801 C-T Homo INTERGENIC
SBS Chr6 29246320 G-A Hetero SYNONYMOUS_CODING
SBS Chr7 5363607 A-G Hetero INTERGENIC
SBS Chr7 6697223 G-A Hetero INTERGENIC
SBS Chr7 7674744 A-T Hetero INTERGENIC
SBS Chr7 13771743 C-T Hetero INTERGENIC
SBS Chr7 18769235 T-A Hetero INTERGENIC
SBS Chr8 16581375 A-C Homo INTERGENIC
SBS Chr8 16736172 C-T Homo INTERGENIC
SBS Chr8 25209781 C-T Hetero INTERGENIC
SBS Chr10 3611410 C-T Homo UTR_5_PRIME
SBS Chr11 1771145 A-C Hetero INTERGENIC
SBS Chr11 10606907 G-A Homo INTERGENIC
SBS Chr11 15073583 T-C Hetero INTERGENIC
SBS Chr11 24457470 G-A Hetero INTERGENIC
SBS Chr12 13441551 G-A Homo NON_SYNONYMOUS_CODING OsKitaake12g111400

Deletions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 5387709 5387719 10
Deletion Chr10 5427699 5427732 33
Deletion Chr1 10634192 10634203 11
Deletion Chr7 11268159 11268160 1
Deletion Chr2 12387434 12387441 7
Deletion Chr4 13171382 13171383 1
Deletion Chr1 16769879 16769880 1
Deletion Chr9 17447609 17447611 2
Deletion Chr7 25762908 25762923 15
Deletion Chr4 28517983 28517985 2
Deletion Chr1 30757001 31137000 379999 63

Insertions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 20399653 20399656 2
Insertion Chr2 1659687 1659689 1
Insertion Chr2 8104107 8104110 2
Insertion Chr3 8123587 8123590 2
Insertion Chr4 32016344 32016347 2
Insertion Chr5 5510289 5510292 2
Insertion Chr4 10143274 10143276 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr6 11271382 12188524 OsKitaake06g124700
Inversion Chr6 11271384 12188585 OsKitaake06g124700
Inversion Chr10 19914841 19915128 OsKitaake10g149200
Inversion Chr3 36425723 36425971 OsKitaake03g404400

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3382775	C-A	Hetero	INTERGENIC
SBS	Chr1	22754295	C-G	Hetero	INTERGENIC
SBS	Chr1	33528635	G-A	Hetero	INTRON
SBS	Chr1	33838611	C-A	Hetero	INTERGENIC
SBS	Chr2	1960897	C-G	Hetero	INTERGENIC
SBS	Chr2	4316836	T-A	Homo	INTERGENIC
SBS	Chr2	32002310	C-T	Hetero	INTERGENIC
SBS	Chr3	5769613	T-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g081800
SBS	Chr3	15788187	A-G	Homo	INTERGENIC
SBS	Chr4	2144348	C-T	Hetero	INTERGENIC
SBS	Chr4	2370529	G-A	Hetero	INTRON
SBS	Chr4	2370530	C-A	Hetero	INTRON
SBS	Chr4	11319222	C-T	Hetero	INTERGENIC
SBS	Chr4	23151048	G-A	Homo	INTERGENIC
SBS	Chr5	9534862	C-A	Homo	INTERGENIC
SBS	Chr5	9534863	C-A	Homo	INTERGENIC
SBS	Chr6	20069090	C-T	Hetero	INTERGENIC
SBS	Chr6	22094801	C-T	Homo	INTERGENIC
SBS	Chr6	29246320	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr7	5363607	A-G	Hetero	INTERGENIC
SBS	Chr7	6697223	G-A	Hetero	INTERGENIC
SBS	Chr7	7674744	A-T	Hetero	INTERGENIC
SBS	Chr7	13771743	C-T	Hetero	INTERGENIC
SBS	Chr7	18769235	T-A	Hetero	INTERGENIC
SBS	Chr8	16581375	A-C	Homo	INTERGENIC
SBS	Chr8	16736172	C-T	Homo	INTERGENIC
SBS	Chr8	25209781	C-T	Hetero	INTERGENIC
SBS	Chr10	3611410	C-T	Homo	UTR_5_PRIME
SBS	Chr11	1771145	A-C	Hetero	INTERGENIC
SBS	Chr11	10606907	G-A	Homo	INTERGENIC
SBS	Chr11	15073583	T-C	Hetero	INTERGENIC
SBS	Chr11	24457470	G-A	Hetero	INTERGENIC
SBS	Chr12	13441551	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake12g111400

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	5387709	5387719	10
Deletion	Chr10	5427699	5427732	33
Deletion	Chr1	10634192	10634203	11
Deletion	Chr7	11268159	11268160	1
Deletion	Chr2	12387434	12387441	7
Deletion	Chr4	13171382	13171383	1
Deletion	Chr1	16769879	16769880	1
Deletion	Chr9	17447609	17447611	2
Deletion	Chr7	25762908	25762923	15
Deletion	Chr4	28517983	28517985	2
Deletion	Chr1	30757001	31137000	379999	63

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	11271382	12188524	OsKitaake06g124700
Inversion	Chr6	11271384	12188585	OsKitaake06g124700
Inversion	Chr10	19914841	19915128	OsKitaake10g149200
Inversion	Chr3	36425723	36425971	OsKitaake03g404400

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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