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Mutant Information

Mutant Name	FN1335-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1335-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:0000346 (Tiller number) = 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: 33

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 4227366 T-A Homo INTRON
SBS Chr1 13931124 C-A Hetero INTERGENIC
SBS Chr1 22754295 C-G Hetero INTERGENIC
SBS Chr1 26349214 G-A Hetero INTERGENIC
SBS Chr1 27439631 C-T Hetero INTERGENIC
SBS Chr2 6813089 C-T Hetero INTRON
SBS Chr2 11088808 A-G Homo INTERGENIC
SBS Chr2 11239112 C-T Hetero INTERGENIC
SBS Chr3 8322316 G-A Hetero INTERGENIC
SBS Chr3 9328071 C-T Homo INTERGENIC
SBS Chr3 20223213 G-A Hetero INTERGENIC
SBS Chr4 27855801 C-T Hetero INTERGENIC
SBS Chr4 32281193 C-T Hetero INTERGENIC
SBS Chr6 14690302 G-A Hetero UTR_3_PRIME
SBS Chr6 28697066 A-T Hetero INTERGENIC
SBS Chr6 29246320 G-A Homo SYNONYMOUS_CODING
SBS Chr7 11493201 C-T Hetero INTERGENIC
SBS Chr7 19752607 G-A Hetero INTERGENIC
SBS Chr7 20801192 G-T Hetero INTERGENIC
SBS Chr8 976915 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake08g013000
SBS Chr9 2926670 T-G Hetero INTERGENIC
SBS Chr9 5480382 T-C Hetero INTERGENIC
SBS Chr9 9632479 T-A Hetero INTRON
SBS Chr9 13143696 G-A Hetero INTERGENIC
SBS Chr9 19924459 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake09g166000
SBS Chr10 10634277 C-T Hetero INTERGENIC
SBS Chr11 3345426 G-T Homo INTERGENIC
SBS Chr11 10606907 G-A Homo INTERGENIC
SBS Chr12 7813059 G-A Homo INTRON
SBS Chr12 13580082 T-C Hetero INTERGENIC
SBS Chr12 15815052 T-A Homo INTERGENIC
SBS Chr12 23841120 C-T Hetero INTERGENIC
SBS Chr12 25185942 T-C Hetero NON_SYNONYMOUS_CODING OsKitaake12g204700

Deletions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 637486 637500 14
Deletion Chr5 2766584 2766600 16
Deletion Chr6 3906606 3906616 10
Deletion Chr1 6260186 6260188 2
Deletion Chr12 6513199 6513200 1
Deletion Chr9 7625935 7625937 2
Deletion Chr2 9554950 9554957 7
Deletion Chr9 17447609 17447611 2
Deletion Chr9 19345644 19345660 16 OsKitaake09g157000
Deletion Chr8 24591001 24595000 3999 OsKitaake08g191600
Deletion Chr2 30099865 30099869 4

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 8187692 8187695 2
Insertion Chr3 234637 234640 2
Insertion Chr4 32016344 32016347 2
Insertion Chr12 2927240 2927243 2
Insertion Chr2 28849671 28849673 1
Insertion Chr7 13341701 13341703 1

Inversions: 5

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 851840 1049719
Inversion Chr8 851851 1049734
Inversion Chr3 29672910 29691072 2
Inversion Chr3 29672916 29691078 2
Inversion Chr2 32851352 33054549

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4227366	T-A	Homo	INTRON
SBS	Chr1	13931124	C-A	Hetero	INTERGENIC
SBS	Chr1	22754295	C-G	Hetero	INTERGENIC
SBS	Chr1	26349214	G-A	Hetero	INTERGENIC
SBS	Chr1	27439631	C-T	Hetero	INTERGENIC
SBS	Chr2	6813089	C-T	Hetero	INTRON
SBS	Chr2	11088808	A-G	Homo	INTERGENIC
SBS	Chr2	11239112	C-T	Hetero	INTERGENIC
SBS	Chr3	8322316	G-A	Hetero	INTERGENIC
SBS	Chr3	9328071	C-T	Homo	INTERGENIC
SBS	Chr3	20223213	G-A	Hetero	INTERGENIC
SBS	Chr4	27855801	C-T	Hetero	INTERGENIC
SBS	Chr4	32281193	C-T	Hetero	INTERGENIC
SBS	Chr6	14690302	G-A	Hetero	UTR_3_PRIME
SBS	Chr6	28697066	A-T	Hetero	INTERGENIC
SBS	Chr6	29246320	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr7	11493201	C-T	Hetero	INTERGENIC
SBS	Chr7	19752607	G-A	Hetero	INTERGENIC
SBS	Chr7	20801192	G-T	Hetero	INTERGENIC
SBS	Chr8	976915	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake08g013000
SBS	Chr9	2926670	T-G	Hetero	INTERGENIC
SBS	Chr9	5480382	T-C	Hetero	INTERGENIC
SBS	Chr9	9632479	T-A	Hetero	INTRON
SBS	Chr9	13143696	G-A	Hetero	INTERGENIC
SBS	Chr9	19924459	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake09g166000
SBS	Chr10	10634277	C-T	Hetero	INTERGENIC
SBS	Chr11	3345426	G-T	Homo	INTERGENIC
SBS	Chr11	10606907	G-A	Homo	INTERGENIC
SBS	Chr12	7813059	G-A	Homo	INTRON
SBS	Chr12	13580082	T-C	Hetero	INTERGENIC
SBS	Chr12	15815052	T-A	Homo	INTERGENIC
SBS	Chr12	23841120	C-T	Hetero	INTERGENIC
SBS	Chr12	25185942	T-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake12g204700

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	637486	637500	14
Deletion	Chr5	2766584	2766600	16
Deletion	Chr6	3906606	3906616	10
Deletion	Chr1	6260186	6260188	2
Deletion	Chr12	6513199	6513200	1
Deletion	Chr9	7625935	7625937	2
Deletion	Chr2	9554950	9554957	7
Deletion	Chr9	17447609	17447611	2
Deletion	Chr9	19345644	19345660	16	OsKitaake09g157000
Deletion	Chr8	24591001	24595000	3999	OsKitaake08g191600
Deletion	Chr2	30099865	30099869	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	851840	1049719
Inversion	Chr8	851851	1049734
Inversion	Chr3	29672910	29691072	2
Inversion	Chr3	29672916	29691078	2
Inversion	Chr2	32851352	33054549

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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