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Mutant Information

Mutant Name	FN323-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN323-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 32

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 4478817 A-G Homo NON_SYNONYMOUS_CODING OsKitaake01g059500
SBS Chr1 11537469 C-T Hetero INTERGENIC
SBS Chr1 19487341 A-C Homo INTERGENIC
SBS Chr1 41171902 G-A Homo INTRON
SBS Chr2 6363771 C-T Hetero UTR_3_PRIME
SBS Chr2 12280210 T-C Hetero INTRON
SBS Chr2 26775193 C-T Hetero INTERGENIC
SBS Chr3 1687220 C-A Hetero INTRON
SBS Chr3 32558908 A-T Homo INTERGENIC
SBS Chr4 12386894 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake04g060100
SBS Chr4 19302530 C-T Hetero INTERGENIC
SBS Chr4 26472082 A-G Hetero SYNONYMOUS_CODING
SBS Chr4 30968375 T-C Hetero INTERGENIC
SBS Chr5 7616488 A-G Homo INTERGENIC
SBS Chr5 14983366 C-T Homo INTERGENIC
SBS Chr5 16671580 G-A Homo INTERGENIC
SBS Chr5 27283299 G-A Homo INTERGENIC
SBS Chr5 28621828 G-A Hetero INTERGENIC
SBS Chr6 6801314 C-G Hetero INTERGENIC
SBS Chr6 27157447 C-A Hetero INTERGENIC
SBS Chr7 4557820 C-T Hetero INTERGENIC
SBS Chr7 6186923 A-C Hetero INTERGENIC
SBS Chr7 6217147 T-A Hetero INTERGENIC
SBS Chr8 11256233 A-C Hetero INTERGENIC
SBS Chr8 15687590 G-A Hetero INTERGENIC
SBS Chr8 16771761 T-C Hetero INTERGENIC
SBS Chr8 18826752 T-A Hetero INTRON
SBS Chr8 20094285 C-A Hetero INTERGENIC
SBS Chr8 28198357 A-C Hetero INTERGENIC
SBS Chr9 5232474 C-T Hetero INTRON
SBS Chr10 20084261 C-T Homo INTERGENIC
SBS Chr12 16836227 A-C Homo INTERGENIC

Deletions: 63

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 1538001 1556000 17999 OsKitaake09g009000
Deletion Chr1 1890772 1890773 1 OsKitaake01g022700
Deletion Chr10 2399001 2418000 18999
Deletion Chr6 2656001 2670000 13999
Deletion Chr1 2706524 2706531 7
Deletion Chr9 2756001 2766000 9999
Deletion Chr5 2951001 2968000 16999
Deletion Chr7 3517061 3517062 1
Deletion Chr6 3663001 3689000 25999 OsKitaake06g051000
Deletion Chr1 4560001 4574000 13999 OsKitaake01g061100
Deletion Chr11 5091001 5109000 17999
Deletion Chr5 6507001 6518000 10999
Deletion Chr10 7060001 7090000 29999
Deletion Chr4 7088001 7104000 15999
Deletion Chr11 7263001 7278000 14999
Deletion Chr7 7925001 7943000 17999 OsKitaake07g087300
Deletion Chr9 8648001 8660000 11999
Deletion Chr1 8781001 8796000 14999
Deletion Chr12 9729001 9756000 26999
Deletion Chr1 9989001 10002000 12999
Deletion Chr1 10248001 10267000 18999
Deletion Chr3 10844001 10870000 25999
Deletion Chr3 10901742 10901744 2
Deletion Chr2 11910001 11937000 26999
Deletion Chr11 12459001 12499000 39999
Deletion Chr10 12571903 12571918 15
Deletion Chr8 13191001 13226000 34999 OsKitaake08g110100
Deletion Chr8 13233001 13260000 26999
Deletion Chr4 13499001 13666000 166999 15
Deletion Chr5 15873001 15894000 20999 OsKitaake05g122000
Deletion Chr6 15986521 15986522 1
Deletion Chr7 16029001 16037000 7999
Deletion Chr9 16291001 16310000 18999
Deletion Chr11 16477001 16488000 10999
Deletion Chr4 17019001 17037000 17999
Deletion Chr11 17386001 17422000 35999
Deletion Chr12 17491013 17491023 10 OsKitaake12g128800
Deletion Chr9 17531001 17554000 22999 OsKitaake09g132301
Deletion Chr10 17682001 17699000 16999
Deletion Chr4 17697001 17709000 11999
Deletion Chr4 18074001 18099000 24999
Deletion Chr11 18241001 18254000 12999
Deletion Chr7 18854316 18854317 1
Deletion Chr10 21300001 21336000 35999
Deletion Chr5 21963001 21978000 14999 OsKitaake05g179200
Deletion Chr4 22014001 22034000 19999 2
Deletion Chr3 22188001 22202000 13999 OsKitaake03g241664
Deletion Chr8 23157001 23178000 20999
Deletion Chr8 23871766 23871772 6
Deletion Chr5 23889001 23899000 9999
Deletion Chr5 25976936 25976940 4
Deletion Chr8 27492001 27513000 20999
Deletion Chr1 27718001 27739000 20999
Deletion Chr6 27947001 27962000 14999
Deletion Chr5 28793001 28801000 7999
Deletion Chr4 30856330 30856335 5
Deletion Chr2 31477001 31495000 17999
Deletion Chr1 31823001 31838000 14999 OsKitaake01g320301
Deletion Chr4 31949001 31970000 20999
Deletion Chr2 33329001 33343000 13999 OsKitaake02g343500
Deletion Chr1 33548525 33548526 1
Deletion Chr1 34701001 34721000 19999
Deletion Chr4 35566001 35588000 21999

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 16736133 16736136 2
Insertion Chr4 22816492 22816495 2
Insertion Chr3 16743903 16743905 1

Inversions: 5

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr1 7187047 7557346 OsKitaake01g089800
Inversion Chr1 7187051 7557352 OsKitaake01g089800
Inversion Chr7 13795040 13833921 OsKitaake07g120300
Inversion Chr5 14983955 15921398
Inversion Chr5 15873747 15921399

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 1173674 Chr5 14983936

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4478817	A-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g059500
SBS	Chr1	11537469	C-T	Hetero	INTERGENIC
SBS	Chr1	19487341	A-C	Homo	INTERGENIC
SBS	Chr1	41171902	G-A	Homo	INTRON
SBS	Chr2	6363771	C-T	Hetero	UTR_3_PRIME
SBS	Chr2	12280210	T-C	Hetero	INTRON
SBS	Chr2	26775193	C-T	Hetero	INTERGENIC
SBS	Chr3	1687220	C-A	Hetero	INTRON
SBS	Chr3	32558908	A-T	Homo	INTERGENIC
SBS	Chr4	12386894	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g060100
SBS	Chr4	19302530	C-T	Hetero	INTERGENIC
SBS	Chr4	26472082	A-G	Hetero	SYNONYMOUS_CODING
SBS	Chr4	30968375	T-C	Hetero	INTERGENIC
SBS	Chr5	7616488	A-G	Homo	INTERGENIC
SBS	Chr5	14983366	C-T	Homo	INTERGENIC
SBS	Chr5	16671580	G-A	Homo	INTERGENIC
SBS	Chr5	27283299	G-A	Homo	INTERGENIC
SBS	Chr5	28621828	G-A	Hetero	INTERGENIC
SBS	Chr6	6801314	C-G	Hetero	INTERGENIC
SBS	Chr6	27157447	C-A	Hetero	INTERGENIC
SBS	Chr7	4557820	C-T	Hetero	INTERGENIC
SBS	Chr7	6186923	A-C	Hetero	INTERGENIC
SBS	Chr7	6217147	T-A	Hetero	INTERGENIC
SBS	Chr8	11256233	A-C	Hetero	INTERGENIC
SBS	Chr8	15687590	G-A	Hetero	INTERGENIC
SBS	Chr8	16771761	T-C	Hetero	INTERGENIC
SBS	Chr8	18826752	T-A	Hetero	INTRON
SBS	Chr8	20094285	C-A	Hetero	INTERGENIC
SBS	Chr8	28198357	A-C	Hetero	INTERGENIC
SBS	Chr9	5232474	C-T	Hetero	INTRON
SBS	Chr10	20084261	C-T	Homo	INTERGENIC
SBS	Chr12	16836227	A-C	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	1538001	1556000	17999	OsKitaake09g009000
Deletion	Chr1	1890772	1890773	1	OsKitaake01g022700
Deletion	Chr10	2399001	2418000	18999
Deletion	Chr6	2656001	2670000	13999
Deletion	Chr1	2706524	2706531	7
Deletion	Chr9	2756001	2766000	9999
Deletion	Chr5	2951001	2968000	16999
Deletion	Chr7	3517061	3517062	1
Deletion	Chr6	3663001	3689000	25999	OsKitaake06g051000
Deletion	Chr1	4560001	4574000	13999	OsKitaake01g061100
Deletion	Chr11	5091001	5109000	17999
Deletion	Chr5	6507001	6518000	10999
Deletion	Chr10	7060001	7090000	29999
Deletion	Chr4	7088001	7104000	15999
Deletion	Chr11	7263001	7278000	14999
Deletion	Chr7	7925001	7943000	17999	OsKitaake07g087300
Deletion	Chr9	8648001	8660000	11999
Deletion	Chr1	8781001	8796000	14999
Deletion	Chr12	9729001	9756000	26999
Deletion	Chr1	9989001	10002000	12999
Deletion	Chr1	10248001	10267000	18999
Deletion	Chr3	10844001	10870000	25999
Deletion	Chr3	10901742	10901744	2
Deletion	Chr2	11910001	11937000	26999
Deletion	Chr11	12459001	12499000	39999
Deletion	Chr10	12571903	12571918	15
Deletion	Chr8	13191001	13226000	34999	OsKitaake08g110100
Deletion	Chr8	13233001	13260000	26999
Deletion	Chr4	13499001	13666000	166999	15
Deletion	Chr5	15873001	15894000	20999	OsKitaake05g122000
Deletion	Chr6	15986521	15986522	1
Deletion	Chr7	16029001	16037000	7999
Deletion	Chr9	16291001	16310000	18999
Deletion	Chr11	16477001	16488000	10999
Deletion	Chr4	17019001	17037000	17999
Deletion	Chr11	17386001	17422000	35999
Deletion	Chr12	17491013	17491023	10	OsKitaake12g128800
Deletion	Chr9	17531001	17554000	22999	OsKitaake09g132301
Deletion	Chr10	17682001	17699000	16999
Deletion	Chr4	17697001	17709000	11999
Deletion	Chr4	18074001	18099000	24999
Deletion	Chr11	18241001	18254000	12999
Deletion	Chr7	18854316	18854317	1
Deletion	Chr10	21300001	21336000	35999
Deletion	Chr5	21963001	21978000	14999	OsKitaake05g179200
Deletion	Chr4	22014001	22034000	19999	2
Deletion	Chr3	22188001	22202000	13999	OsKitaake03g241664
Deletion	Chr8	23157001	23178000	20999
Deletion	Chr8	23871766	23871772	6
Deletion	Chr5	23889001	23899000	9999
Deletion	Chr5	25976936	25976940	4
Deletion	Chr8	27492001	27513000	20999
Deletion	Chr1	27718001	27739000	20999
Deletion	Chr6	27947001	27962000	14999
Deletion	Chr5	28793001	28801000	7999
Deletion	Chr4	30856330	30856335	5
Deletion	Chr2	31477001	31495000	17999
Deletion	Chr1	31823001	31838000	14999	OsKitaake01g320301
Deletion	Chr4	31949001	31970000	20999
Deletion	Chr2	33329001	33343000	13999	OsKitaake02g343500
Deletion	Chr1	33548525	33548526	1
Deletion	Chr1	34701001	34721000	19999
Deletion	Chr4	35566001	35588000	21999

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	7187047	7557346	OsKitaake01g089800
Inversion	Chr1	7187051	7557352	OsKitaake01g089800
Inversion	Chr7	13795040	13833921	OsKitaake07g120300
Inversion	Chr5	14983955	15921398
Inversion	Chr5	15873747	15921399

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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