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Mutant Information

Mutant Name	FN1309-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1309-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) = Low (Between 25% and 74%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 38

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 2534868 G-A Hetero INTERGENIC
SBS Chr1 10593492 A-T Hetero INTERGENIC
SBS Chr1 17282598 A-G Hetero INTERGENIC
SBS Chr1 19987870 G-C Homo INTERGENIC
SBS Chr1 20616533 T-A Homo INTERGENIC
SBS Chr1 29770687 C-T Hetero INTERGENIC
SBS Chr2 4578961 G-T Hetero INTERGENIC
SBS Chr2 5401973 T-G Hetero INTERGENIC
SBS Chr2 6238828 C-T Hetero INTERGENIC
SBS Chr2 23865950 C-A Homo INTERGENIC
SBS Chr3 6487002 C-T Homo INTERGENIC
SBS Chr3 9516160 C-A Hetero INTERGENIC
SBS Chr3 10467385 G-A Homo INTERGENIC
SBS Chr3 10467386 A-G Homo INTERGENIC
SBS Chr3 28869912 G-C Hetero UTR_5_PRIME
SBS Chr4 1108521 T-C Homo INTERGENIC
SBS Chr4 10988500 C-T Hetero INTERGENIC
SBS Chr5 8243106 G-A Hetero INTERGENIC
SBS Chr5 14478201 G-A Hetero INTRON
SBS Chr5 16924478 A-T Hetero INTERGENIC
SBS Chr6 8945532 C-T Hetero INTERGENIC
SBS Chr6 15734433 C-T Hetero INTERGENIC
SBS Chr6 21770743 T-G Hetero INTERGENIC
SBS Chr7 5031525 C-A Homo INTERGENIC
SBS Chr7 12612797 G-T Homo INTERGENIC
SBS Chr7 24324791 T-G Hetero INTRON
SBS Chr8 476811 A-G Homo INTERGENIC
SBS Chr8 20608624 A-G Hetero INTERGENIC
SBS Chr9 3525559 G-A Homo INTERGENIC
SBS Chr9 18746244 C-T Hetero INTERGENIC
SBS Chr10 1044854 T-C Homo INTERGENIC
SBS Chr10 24039166 C-T Homo INTERGENIC
SBS Chr11 3725894 C-A Homo INTERGENIC
SBS Chr11 7328361 A-C Hetero NON_SYNONYMOUS_CODING OsKitaake11g083600
SBS Chr11 16621674 G-A Hetero INTERGENIC
SBS Chr11 19075887 C-T Homo INTERGENIC
SBS Chr12 17083657 G-A Hetero INTERGENIC
SBS Chr12 18966767 C-T Homo INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr12 6548677 6548690 13
Deletion Chr5 7651110 7651123 13
Deletion Chr10 8280920 8280921 1
Deletion Chr3 12437800 12437803 3
Deletion Chr4 12891597 12891598 1
Deletion Chr7 13545651 13545662 11
Deletion Chr2 14747241 14747243 2
Deletion Chr7 16963001 16995000 31999 3
Deletion Chr8 18073102 18073120 18
Deletion Chr8 19819061 19819067 6 OsKitaake08g146100
Deletion Chr1 19940001 19969000 28999
Deletion Chr3 20677245 20677254 9
Deletion Chr6 24089137 24089140 3
Deletion Chr8 24301344 24301348 4
Deletion Chr3 25987892 25987900 8

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 56230 56233 2
Insertion Chr7 4976381 4976384 2
Insertion Chr8 11587067 11587070 2
Insertion Chr9 1454778 1454781 2
Insertion Chr11 1823218 1823221 2

Inversions: 8

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr6 12544756 13541001
Inversion Chr6 12549838 13541003
Inversion Chr7 14961592 15501822
Inversion Chr1 19630507 19965692 OsKitaake01g195600
Inversion Chr3 22173263 22351976 2
Inversion Chr3 22173274 22351979 2
Inversion Chr3 37524516 37613627 OsKitaake03g422400
Inversion Chr3 37524520 37613636 OsKitaake03g422400

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr7 20623077 Chr2 15635063 OsKitaake07g169200
Translocation Chr8 24449193 Chr7 20623084 2
Translocation Chr8 24449845 Chr7 20623081 2
Translocation Chr11 27217340 Chr8 24450360

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	2534868	G-A	Hetero	INTERGENIC
SBS	Chr1	10593492	A-T	Hetero	INTERGENIC
SBS	Chr1	17282598	A-G	Hetero	INTERGENIC
SBS	Chr1	19987870	G-C	Homo	INTERGENIC
SBS	Chr1	20616533	T-A	Homo	INTERGENIC
SBS	Chr1	29770687	C-T	Hetero	INTERGENIC
SBS	Chr2	4578961	G-T	Hetero	INTERGENIC
SBS	Chr2	5401973	T-G	Hetero	INTERGENIC
SBS	Chr2	6238828	C-T	Hetero	INTERGENIC
SBS	Chr2	23865950	C-A	Homo	INTERGENIC
SBS	Chr3	6487002	C-T	Homo	INTERGENIC
SBS	Chr3	9516160	C-A	Hetero	INTERGENIC
SBS	Chr3	10467385	G-A	Homo	INTERGENIC
SBS	Chr3	10467386	A-G	Homo	INTERGENIC
SBS	Chr3	28869912	G-C	Hetero	UTR_5_PRIME
SBS	Chr4	1108521	T-C	Homo	INTERGENIC
SBS	Chr4	10988500	C-T	Hetero	INTERGENIC
SBS	Chr5	8243106	G-A	Hetero	INTERGENIC
SBS	Chr5	14478201	G-A	Hetero	INTRON
SBS	Chr5	16924478	A-T	Hetero	INTERGENIC
SBS	Chr6	8945532	C-T	Hetero	INTERGENIC
SBS	Chr6	15734433	C-T	Hetero	INTERGENIC
SBS	Chr6	21770743	T-G	Hetero	INTERGENIC
SBS	Chr7	5031525	C-A	Homo	INTERGENIC
SBS	Chr7	12612797	G-T	Homo	INTERGENIC
SBS	Chr7	24324791	T-G	Hetero	INTRON
SBS	Chr8	476811	A-G	Homo	INTERGENIC
SBS	Chr8	20608624	A-G	Hetero	INTERGENIC
SBS	Chr9	3525559	G-A	Homo	INTERGENIC
SBS	Chr9	18746244	C-T	Hetero	INTERGENIC
SBS	Chr10	1044854	T-C	Homo	INTERGENIC
SBS	Chr10	24039166	C-T	Homo	INTERGENIC
SBS	Chr11	3725894	C-A	Homo	INTERGENIC
SBS	Chr11	7328361	A-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g083600
SBS	Chr11	16621674	G-A	Hetero	INTERGENIC
SBS	Chr11	19075887	C-T	Homo	INTERGENIC
SBS	Chr12	17083657	G-A	Hetero	INTERGENIC
SBS	Chr12	18966767	C-T	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr12	6548677	6548690	13
Deletion	Chr5	7651110	7651123	13
Deletion	Chr10	8280920	8280921	1
Deletion	Chr3	12437800	12437803	3
Deletion	Chr4	12891597	12891598	1
Deletion	Chr7	13545651	13545662	11
Deletion	Chr2	14747241	14747243	2
Deletion	Chr7	16963001	16995000	31999	3
Deletion	Chr8	18073102	18073120	18
Deletion	Chr8	19819061	19819067	6	OsKitaake08g146100
Deletion	Chr1	19940001	19969000	28999
Deletion	Chr3	20677245	20677254	9
Deletion	Chr6	24089137	24089140	3
Deletion	Chr8	24301344	24301348	4
Deletion	Chr3	25987892	25987900	8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	12544756	13541001
Inversion	Chr6	12549838	13541003
Inversion	Chr7	14961592	15501822
Inversion	Chr1	19630507	19965692	OsKitaake01g195600
Inversion	Chr3	22173263	22351976	2
Inversion	Chr3	22173274	22351979	2
Inversion	Chr3	37524516	37613627	OsKitaake03g422400
Inversion	Chr3	37524520	37613636	OsKitaake03g422400

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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