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Mutant Information

Mutant Name	FN2279-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2279-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: 63

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 11295816 C-T Hetero STOP_GAINED OsKitaake01g138400
SBS Chr1 20596862 T-C Hetero INTRON
SBS Chr1 22589938 C-T Homo INTERGENIC
SBS Chr1 23659686 A-C Homo INTRON
SBS Chr1 23659691 C-T Homo INTRON
SBS Chr1 27472072 C-T Hetero INTERGENIC
SBS Chr1 35462606 G-A Hetero INTRON
SBS Chr2 2621637 C-T Homo INTERGENIC
SBS Chr2 2621638 G-T Homo INTERGENIC
SBS Chr2 16850784 A-G Homo INTERGENIC
SBS Chr3 16516380 C-T Hetero INTERGENIC
SBS Chr3 25116704 A-T Hetero INTERGENIC
SBS Chr3 31363117 T-C Hetero INTERGENIC
SBS Chr4 19420557 G-A Hetero INTERGENIC
SBS Chr4 20958073 G-T Hetero INTERGENIC
SBS Chr4 26075638 C-T Homo INTERGENIC
SBS Chr4 28625161 A-G Hetero INTERGENIC
SBS Chr5 7944888 G-A Homo INTERGENIC
SBS Chr5 12152179 C-T Homo INTERGENIC
SBS Chr5 14084471 T-A Homo INTERGENIC
SBS Chr5 20547241 C-T Hetero INTERGENIC
SBS Chr5 21393026 T-C Homo INTERGENIC
SBS Chr6 2764648 G-T Hetero INTRON
SBS Chr6 7100758 C-T Homo INTERGENIC
SBS Chr6 10350135 T-C Hetero INTERGENIC
SBS Chr6 13487004 G-A Hetero INTERGENIC
SBS Chr6 13668643 G-C Hetero NON_SYNONYMOUS_CODING OsKitaake06g143000
SBS Chr6 15263978 G-A Hetero INTERGENIC
SBS Chr6 16037457 C-T Hetero INTRON
SBS Chr6 19342176 C-T Hetero INTERGENIC
SBS Chr6 22760006 G-A Hetero INTERGENIC
SBS Chr6 22760022 G-A Hetero INTERGENIC
SBS Chr6 27172787 C-T Hetero INTERGENIC
SBS Chr6 30615045 G-A Hetero SYNONYMOUS_CODING
SBS Chr7 11548312 T-A Hetero INTERGENIC
SBS Chr7 19873033 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake07g162500
SBS Chr7 24235935 T-C Homo UTR_5_PRIME
SBS Chr8 3486242 A-T Homo INTERGENIC
SBS Chr8 9401287 C-T Homo INTERGENIC
SBS Chr8 13806402 C-T Hetero INTERGENIC
SBS Chr8 19404422 C-T Homo INTERGENIC
SBS Chr8 19768410 C-T Hetero INTERGENIC
SBS Chr8 21230004 G-T Hetero INTERGENIC
SBS Chr8 26944956 A-T Hetero NON_SYNONYMOUS_CODING OsKitaake08g218800
SBS Chr9 17205363 G-A Homo INTERGENIC
SBS Chr9 17205364 G-C Homo INTERGENIC
SBS Chr9 20816521 C-T Homo INTERGENIC
SBS Chr10 1401438 A-C Homo INTERGENIC
SBS Chr10 5488658 C-G Hetero INTERGENIC
SBS Chr10 14501029 A-T Homo INTERGENIC
SBS Chr10 17597940 A-C Hetero INTERGENIC
SBS Chr10 21129947 T-C Hetero INTERGENIC
SBS Chr11 111736 T-C Hetero INTERGENIC
SBS Chr11 723288 C-T Homo INTERGENIC
SBS Chr11 6425082 C-T Hetero INTERGENIC
SBS Chr11 6425083 C-T Hetero INTERGENIC
SBS Chr11 18099337 C-T Hetero INTERGENIC
SBS Chr11 18641420 G-A Hetero INTERGENIC
SBS Chr11 18689741 T-G Hetero INTERGENIC
SBS Chr12 207373 C-T Homo INTERGENIC
SBS Chr12 8466308 C-T Hetero INTERGENIC
SBS Chr12 10564712 T-A Hetero INTERGENIC
SBS Chr12 10575728 C-T Hetero INTERGENIC

Deletions: 33

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr8 852079 852087 8
Deletion Chr8 1706994 1706999 5
Deletion Chr2 3055092 3055105 13 OsKitaake02g043601
Deletion Chr8 4374001 4557000 182999 22
Deletion Chr6 4476439 4476440 1
Deletion Chr1 6484737 6484748 11
Deletion Chr7 6839001 6866000 26999 OsKitaake07g078500
Deletion Chr7 7422331 7422333 2
Deletion Chr7 7789001 7798000 8999
Deletion Chr7 8301454 8301456 2
Deletion Chr6 10627177 10627180 3
Deletion Chr5 11754814 11754823 9
Deletion Chr4 12395408 12395412 4
Deletion Chr12 13298216 13298222 6
Deletion Chr11 13300545 13300548 3
Deletion Chr10 14523001 14531000 7999 OsKitaake10g091000
Deletion Chr10 15450162 15450174 12
Deletion Chr12 16030001 16063000 32999 2
Deletion Chr10 16178770 16178772 2
Deletion Chr9 18026368 18026369 1
Deletion Chr5 19331404 19331405 1
Deletion Chr4 19434001 19447000 12999 OsKitaake04g099601
Deletion Chr9 19967094 19967098 4
Deletion Chr2 20788829 20788835 6
Deletion Chr8 21541090 21541107 17
Deletion Chr6 22744635 22744636 1
Deletion Chr11 22784001 22833000 48999 2
Deletion Chr11 26528216 26528219 3
Deletion Chr3 26798836 26798838 2
Deletion Chr11 29079558 29079566 8
Deletion Chr1 32679587 32679589 2
Deletion Chr3 34012065 34012066 1
Deletion Chr3 36288151 36288155 4

Insertions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 24770143 24770146 2
Insertion Chr1 38143839 38143841 1
Insertion Chr3 14519147 14519150 2
Insertion Chr5 2435481 2435484 2
Insertion Chr7 15700486 15700490 3
Insertion Chr8 3379517 3379520 2
Insertion Chr8 26202034 26202036 1

Inversions: 7

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 113874 313643 OsKitaake02g004400
Inversion Chr2 115683 313644 OsKitaake02g004400
Inversion Chr7 10407901 11299591
Inversion Chr7 10407903 11299593
Inversion Chr5 15422397 15868291
Inversion Chr4 17850434 17963707
Inversion Chr4 17850440 17963715

Translocations: 5

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr12 4388147 Chr7 7798095
Translocation Chr12 4527736 Chr7 7788024
Translocation Chr11 11233853 Chr8 4577852 OsKitaake11g107600
Translocation Chr11 11233876 Chr8 4551561 2
Translocation Chr12 15552960 Chr8 19946099

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	11295816	C-T	Hetero	STOP_GAINED	OsKitaake01g138400
SBS	Chr1	20596862	T-C	Hetero	INTRON
SBS	Chr1	22589938	C-T	Homo	INTERGENIC
SBS	Chr1	23659686	A-C	Homo	INTRON
SBS	Chr1	23659691	C-T	Homo	INTRON
SBS	Chr1	27472072	C-T	Hetero	INTERGENIC
SBS	Chr1	35462606	G-A	Hetero	INTRON
SBS	Chr2	2621637	C-T	Homo	INTERGENIC
SBS	Chr2	2621638	G-T	Homo	INTERGENIC
SBS	Chr2	16850784	A-G	Homo	INTERGENIC
SBS	Chr3	16516380	C-T	Hetero	INTERGENIC
SBS	Chr3	25116704	A-T	Hetero	INTERGENIC
SBS	Chr3	31363117	T-C	Hetero	INTERGENIC
SBS	Chr4	19420557	G-A	Hetero	INTERGENIC
SBS	Chr4	20958073	G-T	Hetero	INTERGENIC
SBS	Chr4	26075638	C-T	Homo	INTERGENIC
SBS	Chr4	28625161	A-G	Hetero	INTERGENIC
SBS	Chr5	7944888	G-A	Homo	INTERGENIC
SBS	Chr5	12152179	C-T	Homo	INTERGENIC
SBS	Chr5	14084471	T-A	Homo	INTERGENIC
SBS	Chr5	20547241	C-T	Hetero	INTERGENIC
SBS	Chr5	21393026	T-C	Homo	INTERGENIC
SBS	Chr6	2764648	G-T	Hetero	INTRON
SBS	Chr6	7100758	C-T	Homo	INTERGENIC
SBS	Chr6	10350135	T-C	Hetero	INTERGENIC
SBS	Chr6	13487004	G-A	Hetero	INTERGENIC
SBS	Chr6	13668643	G-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g143000
SBS	Chr6	15263978	G-A	Hetero	INTERGENIC
SBS	Chr6	16037457	C-T	Hetero	INTRON
SBS	Chr6	19342176	C-T	Hetero	INTERGENIC
SBS	Chr6	22760006	G-A	Hetero	INTERGENIC
SBS	Chr6	22760022	G-A	Hetero	INTERGENIC
SBS	Chr6	27172787	C-T	Hetero	INTERGENIC
SBS	Chr6	30615045	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr7	11548312	T-A	Hetero	INTERGENIC
SBS	Chr7	19873033	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake07g162500
SBS	Chr7	24235935	T-C	Homo	UTR_5_PRIME
SBS	Chr8	3486242	A-T	Homo	INTERGENIC
SBS	Chr8	9401287	C-T	Homo	INTERGENIC
SBS	Chr8	13806402	C-T	Hetero	INTERGENIC
SBS	Chr8	19404422	C-T	Homo	INTERGENIC
SBS	Chr8	19768410	C-T	Hetero	INTERGENIC
SBS	Chr8	21230004	G-T	Hetero	INTERGENIC
SBS	Chr8	26944956	A-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake08g218800
SBS	Chr9	17205363	G-A	Homo	INTERGENIC
SBS	Chr9	17205364	G-C	Homo	INTERGENIC
SBS	Chr9	20816521	C-T	Homo	INTERGENIC
SBS	Chr10	1401438	A-C	Homo	INTERGENIC
SBS	Chr10	5488658	C-G	Hetero	INTERGENIC
SBS	Chr10	14501029	A-T	Homo	INTERGENIC
SBS	Chr10	17597940	A-C	Hetero	INTERGENIC
SBS	Chr10	21129947	T-C	Hetero	INTERGENIC
SBS	Chr11	111736	T-C	Hetero	INTERGENIC
SBS	Chr11	723288	C-T	Homo	INTERGENIC
SBS	Chr11	6425082	C-T	Hetero	INTERGENIC
SBS	Chr11	6425083	C-T	Hetero	INTERGENIC
SBS	Chr11	18099337	C-T	Hetero	INTERGENIC
SBS	Chr11	18641420	G-A	Hetero	INTERGENIC
SBS	Chr11	18689741	T-G	Hetero	INTERGENIC
SBS	Chr12	207373	C-T	Homo	INTERGENIC
SBS	Chr12	8466308	C-T	Hetero	INTERGENIC
SBS	Chr12	10564712	T-A	Hetero	INTERGENIC
SBS	Chr12	10575728	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr8	852079	852087	8
Deletion	Chr8	1706994	1706999	5
Deletion	Chr2	3055092	3055105	13	OsKitaake02g043601
Deletion	Chr8	4374001	4557000	182999	22
Deletion	Chr6	4476439	4476440	1
Deletion	Chr1	6484737	6484748	11
Deletion	Chr7	6839001	6866000	26999	OsKitaake07g078500
Deletion	Chr7	7422331	7422333	2
Deletion	Chr7	7789001	7798000	8999
Deletion	Chr7	8301454	8301456	2
Deletion	Chr6	10627177	10627180	3
Deletion	Chr5	11754814	11754823	9
Deletion	Chr4	12395408	12395412	4
Deletion	Chr12	13298216	13298222	6
Deletion	Chr11	13300545	13300548	3
Deletion	Chr10	14523001	14531000	7999	OsKitaake10g091000
Deletion	Chr10	15450162	15450174	12
Deletion	Chr12	16030001	16063000	32999	2
Deletion	Chr10	16178770	16178772	2
Deletion	Chr9	18026368	18026369	1
Deletion	Chr5	19331404	19331405	1
Deletion	Chr4	19434001	19447000	12999	OsKitaake04g099601
Deletion	Chr9	19967094	19967098	4
Deletion	Chr2	20788829	20788835	6
Deletion	Chr8	21541090	21541107	17
Deletion	Chr6	22744635	22744636	1
Deletion	Chr11	22784001	22833000	48999	2
Deletion	Chr11	26528216	26528219	3
Deletion	Chr3	26798836	26798838	2
Deletion	Chr11	29079558	29079566	8
Deletion	Chr1	32679587	32679589	2
Deletion	Chr3	34012065	34012066	1
Deletion	Chr3	36288151	36288155	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	113874	313643	OsKitaake02g004400
Inversion	Chr2	115683	313644	OsKitaake02g004400
Inversion	Chr7	10407901	11299591
Inversion	Chr7	10407903	11299593
Inversion	Chr5	15422397	15868291
Inversion	Chr4	17850434	17963707
Inversion	Chr4	17850440	17963715

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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