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Mutant Information

Mutant Name	FN1468-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1468-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: 29

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1434964 C-A Homo INTERGENIC
SBS Chr1 22630665 C-A Hetero INTRON
SBS Chr1 25156610 C-A Hetero INTERGENIC
SBS Chr1 26392403 G-A Hetero INTERGENIC
SBS Chr1 33913179 A-G Hetero INTERGENIC
SBS Chr1 39779256 T-C Hetero INTRON
SBS Chr1 40135507 C-G Hetero INTERGENIC
SBS Chr2 13007573 G-A Hetero INTERGENIC
SBS Chr2 13007574 G-A Hetero INTERGENIC
SBS Chr2 16727938 C-G Hetero INTRON
SBS Chr2 18622524 C-A Hetero INTERGENIC
SBS Chr3 1035814 T-A Hetero INTERGENIC
SBS Chr3 28788967 T-C Hetero INTERGENIC
SBS Chr4 5910061 G-A Hetero INTERGENIC
SBS Chr4 11145531 G-A Homo INTERGENIC
SBS Chr4 24113988 A-C Hetero NON_SYNONYMOUS_CODING OsKitaake04g154400
SBS Chr5 2071795 G-A Hetero INTERGENIC
SBS Chr6 2663243 C-T Homo INTERGENIC
SBS Chr7 9264896 C-T Homo INTRON
SBS Chr8 9086985 T-C Homo INTERGENIC
SBS Chr8 12730464 A-C Homo INTERGENIC
SBS Chr8 14832136 A-T Hetero INTERGENIC
SBS Chr8 18089441 A-T Hetero INTRON
SBS Chr9 3928199 A-C Hetero INTRON
SBS Chr9 10615877 T-C Hetero INTERGENIC
SBS Chr9 15444411 G-A Homo INTERGENIC
SBS Chr10 14659287 T-A Homo INTERGENIC
SBS Chr11 9450854 T-G Hetero INTRON
SBS Chr12 22476135 C-T Homo INTRON

Deletions: 125

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr3 173001 188000 14999 4
Deletion Chr1 328087 328108 21
Deletion Chr8 367001 400000 32999 11
Deletion Chr1 370001 382000 11999 OsKitaake01g005200
Deletion Chr6 736001 778000 41999 3
Deletion Chr8 914001 937000 22999 OsKitaake08g012200
Deletion Chr3 1085001 1107000 21999 OsKitaake03g016901
Deletion Chr2 1356909 1356919 10
Deletion Chr9 1602001 1615000 12999 OsKitaake09g009200
Deletion Chr10 2166001 2177000 10999 2
Deletion Chr7 3170001 3186000 15999 2
Deletion Chr3 3323001 3350000 26999 3
Deletion Chr5 3369001 3424000 54999 7
Deletion Chr10 3490001 3520000 29999 OsKitaake10g026400
Deletion Chr9 3498001 3514000 15999 OsKitaake09g018000
Deletion Chr8 3669001 3691000 21999 2
Deletion Chr9 3699001 3737000 37999 2
Deletion Chr5 3747001 3764000 16999 3
Deletion Chr7 3944001 3965000 20999 OsKitaake07g050300
Deletion Chr7 4459001 4476000 16999 2
Deletion Chr7 4741001 4752000 10999
Deletion Chr7 4794001 4813000 18999 2
Deletion Chr4 4877001 4899000 21999 2
Deletion Chr8 5418001 5447000 28999 4
Deletion Chr1 5696164 5696177 13
Deletion Chr12 5784001 5799000 14999 2
Deletion Chr3 6077001 6111000 33999 3
Deletion Chr5 6195001 6212000 16999 OsKitaake05g064100
Deletion Chr2 6208001 6220000 11999 2
Deletion Chr4 6322001 6334000 11999 OsKitaake04g031700
Deletion Chr9 6932001 6955000 22999 OsKitaake09g039700
Deletion Chr7 7094629 7094635 6
Deletion Chr12 7149001 7160000 10999 OsKitaake12g080100
Deletion Chr4 7381653 7381659 6
Deletion Chr6 7606001 7627000 20999
Deletion Chr9 7835001 7846000 10999 3
Deletion Chr8 7859001 7873000 13999
Deletion Chr5 7964001 7977000 12999 3
Deletion Chr6 8237001 8257000 19999 2
Deletion Chr2 8388001 8394000 5999 OsKitaake02g106600
Deletion Chr3 8463001 8473000 9999 OsKitaake03g116100
Deletion Chr4 8643001 8659000 15999 2
Deletion Chr9 8752001 8775000 22999 OsKitaake09g051400
Deletion Chr4 8929001 8950000 20999 OsKitaake04g046100
Deletion Chr11 9464001 9485000 20999 2
Deletion Chr7 9487825 9487835 10
Deletion Chr5 9573001 9588000 14999
Deletion Chr4 10186001 10218000 31999
Deletion Chr2 10268738 10268743 5
Deletion Chr4 10496001 10557000 60999 OsKitaake04g055600
Deletion Chr7 10733001 10744000 10999 2
Deletion Chr1 10964194 10964197 3
Deletion Chr11 11380001 11394000 13999
Deletion Chr8 11432001 11494000 61999 3
Deletion Chr6 11476001 11495000 18999 OsKitaake06g126800
Deletion Chr12 12168001 12188000 19999
Deletion Chr5 12513001 12574000 60999
Deletion Chr2 12749001 12765000 15999 4
Deletion Chr3 13108001 13122000 13999 2
Deletion Chr8 13203001 13262000 58999
Deletion Chr5 13826001 13839000 12999 3
Deletion Chr2 13847001 13858000 10999
Deletion Chr10 13867001 13890000 22999 OsKitaake10g084800
Deletion Chr9 13921159 13921162 3
Deletion Chr9 14138001 14167000 28999 2
Deletion Chr1 14645001 14696000 50999 2
Deletion Chr6 15210501 15210502 1
Deletion Chr3 15547001 15579000 31999
Deletion Chr2 16068001 16112000 43999 OsKitaake02g166300
Deletion Chr8 16562001 16580000 17999 4
Deletion Chr8 16813001 16823000 9999
Deletion Chr5 17063001 17096000 32999 OsKitaake05g131400
Deletion Chr4 17090001 17102000 11999 OsKitaake04g083400
Deletion Chr2 17109001 17149000 39999 3
Deletion Chr1 17232001 17244000 11999
Deletion Chr12 17388724 17388726 2
Deletion Chr10 17472001 17504000 31999 2
Deletion Chr2 17541001 17559000 17999 OsKitaake02g176100
Deletion Chr8 18078001 18115000 36999 OsKitaake08g134500
Deletion Chr5 18123930 18123935 5
Deletion Chr12 19273001 19282000 8999 OsKitaake12g144200
Deletion Chr4 19340001 19364000 23999 OsKitaake04g098600
Deletion Chr4 19635001 19667000 31999 2
Deletion Chr8 19685001 19717000 31999 2
Deletion Chr3 19995001 20030000 34999 OsKitaake03g230101
Deletion Chr3 20262001 20289000 26999
Deletion Chr1 20684001 20701000 16999 OsKitaake01g202700
Deletion Chr2 20764001 20792000 27999 OsKitaake02g201300
Deletion Chr8 21043125 21043127 2
Deletion Chr9 21308001 21331000 22999 2
Deletion Chr1 21551001 21577000 25999 OsKitaake01g207900
Deletion Chr12 21618001 21632000 13999
Deletion Chr3 22309001 22320000 10999 OsKitaake03g242600
Deletion Chr1 22495325 22495326 1
Deletion Chr10 22688001 22698000 9999 OsKitaake10g187800
Deletion Chr1 22819296 22819301 5
Deletion Chr1 23258001 23271000 12999 OsKitaake01g222400
Deletion Chr12 23797001 23870000 72999 11
Deletion Chr3 24061001 24071000 9999 OsKitaake03g257300
Deletion Chr8 24207633 24207637 4
Deletion Chr12 24378001 24397000 18999 3
Deletion Chr2 24406001 24432000 25999
Deletion Chr8 24969001 24993000 23999 OsKitaake08g194166
Deletion Chr3 25214001 25230000 15999 OsKitaake03g266800
Deletion Chr6 25259001 25275000 15999 OsKitaake06g223800
Deletion Chr2 25660097 25660109 12
Deletion Chr7 26295001 26306000 10999 OsKitaake07g242100
Deletion Chr12 26725001 26739000 13999 OsKitaake12g222100
Deletion Chr7 26846001 26864000 17999 OsKitaake07g250200
Deletion Chr12 27038896 27038900 4
Deletion Chr12 27141001 27154000 12999
Deletion Chr6 27778001 27790000 11999
Deletion Chr3 28183001 28218000 34999 5
Deletion Chr7 28245001 28259000 13999 2
Deletion Chr6 28337001 28350000 12999
Deletion Chr6 28480518 28480519 1
Deletion Chr3 28655001 28669000 13999
Deletion Chr6 29849362 29849363 1 OsKitaake06g279300
Deletion Chr4 32961799 32961804 5
Deletion Chr1 33453001 33469000 15999 OsKitaake01g342500
Deletion Chr1 33738001 33755000 16999 OsKitaake01g346400
Deletion Chr1 41462001 41478000 15999
Deletion Chr1 42310001 42328000 17999 OsKitaake01g466400
Deletion Chr1 42858266 42858271 5
Deletion Chr1 43011001 43026000 14999 OsKitaake01g474600

Insertions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 24761923 24761926 2
Insertion Chr1 30729204 30729207 2
Insertion Chr1 40134458 40134460 1
Insertion Chr5 20291898 20291901 2
Insertion Chr2 35360528 35360531 2
Insertion Chr5 29939081 29939084 2
Insertion Chr7 12006316 12006318 1

Inversions: 5

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 1256401 1344889 OsKitaake08g016200
Inversion Chr8 1256429 1345929 OsKitaake08g016200
Inversion Chr7 24633781 24634511
Inversion Chr6 28721224 29357762 OsKitaake06g271900
Inversion Chr6 28721225 29357762 OsKitaake06g271900

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr8 1344895 Chr1 16683529 OsKitaake01g177400
Translocation Chr8 1345152 Chr1 16683609 OsKitaake01g177400
Translocation Chr10 3254433 Chr8 1345200
Translocation Chr10 19718057 Chr8 20348295 OsKitaake08g150400
Translocation Chr10 19718066 Chr8 20347712 OsKitaake08g150400
Translocation Chr8 22492478 Chr2 36456389 OsKitaake02g386700

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1434964	C-A	Homo	INTERGENIC
SBS	Chr1	22630665	C-A	Hetero	INTRON
SBS	Chr1	25156610	C-A	Hetero	INTERGENIC
SBS	Chr1	26392403	G-A	Hetero	INTERGENIC
SBS	Chr1	33913179	A-G	Hetero	INTERGENIC
SBS	Chr1	39779256	T-C	Hetero	INTRON
SBS	Chr1	40135507	C-G	Hetero	INTERGENIC
SBS	Chr2	13007573	G-A	Hetero	INTERGENIC
SBS	Chr2	13007574	G-A	Hetero	INTERGENIC
SBS	Chr2	16727938	C-G	Hetero	INTRON
SBS	Chr2	18622524	C-A	Hetero	INTERGENIC
SBS	Chr3	1035814	T-A	Hetero	INTERGENIC
SBS	Chr3	28788967	T-C	Hetero	INTERGENIC
SBS	Chr4	5910061	G-A	Hetero	INTERGENIC
SBS	Chr4	11145531	G-A	Homo	INTERGENIC
SBS	Chr4	24113988	A-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g154400
SBS	Chr5	2071795	G-A	Hetero	INTERGENIC
SBS	Chr6	2663243	C-T	Homo	INTERGENIC
SBS	Chr7	9264896	C-T	Homo	INTRON
SBS	Chr8	9086985	T-C	Homo	INTERGENIC
SBS	Chr8	12730464	A-C	Homo	INTERGENIC
SBS	Chr8	14832136	A-T	Hetero	INTERGENIC
SBS	Chr8	18089441	A-T	Hetero	INTRON
SBS	Chr9	3928199	A-C	Hetero	INTRON
SBS	Chr9	10615877	T-C	Hetero	INTERGENIC
SBS	Chr9	15444411	G-A	Homo	INTERGENIC
SBS	Chr10	14659287	T-A	Homo	INTERGENIC
SBS	Chr11	9450854	T-G	Hetero	INTRON
SBS	Chr12	22476135	C-T	Homo	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr3	173001	188000	14999	4
Deletion	Chr1	328087	328108	21
Deletion	Chr8	367001	400000	32999	11
Deletion	Chr1	370001	382000	11999	OsKitaake01g005200
Deletion	Chr6	736001	778000	41999	3
Deletion	Chr8	914001	937000	22999	OsKitaake08g012200
Deletion	Chr3	1085001	1107000	21999	OsKitaake03g016901
Deletion	Chr2	1356909	1356919	10
Deletion	Chr9	1602001	1615000	12999	OsKitaake09g009200
Deletion	Chr10	2166001	2177000	10999	2
Deletion	Chr7	3170001	3186000	15999	2
Deletion	Chr3	3323001	3350000	26999	3
Deletion	Chr5	3369001	3424000	54999	7
Deletion	Chr10	3490001	3520000	29999	OsKitaake10g026400
Deletion	Chr9	3498001	3514000	15999	OsKitaake09g018000
Deletion	Chr8	3669001	3691000	21999	2
Deletion	Chr9	3699001	3737000	37999	2
Deletion	Chr5	3747001	3764000	16999	3
Deletion	Chr7	3944001	3965000	20999	OsKitaake07g050300
Deletion	Chr7	4459001	4476000	16999	2
Deletion	Chr7	4741001	4752000	10999
Deletion	Chr7	4794001	4813000	18999	2
Deletion	Chr4	4877001	4899000	21999	2
Deletion	Chr8	5418001	5447000	28999	4
Deletion	Chr1	5696164	5696177	13
Deletion	Chr12	5784001	5799000	14999	2
Deletion	Chr3	6077001	6111000	33999	3
Deletion	Chr5	6195001	6212000	16999	OsKitaake05g064100
Deletion	Chr2	6208001	6220000	11999	2
Deletion	Chr4	6322001	6334000	11999	OsKitaake04g031700
Deletion	Chr9	6932001	6955000	22999	OsKitaake09g039700
Deletion	Chr7	7094629	7094635	6
Deletion	Chr12	7149001	7160000	10999	OsKitaake12g080100
Deletion	Chr4	7381653	7381659	6
Deletion	Chr6	7606001	7627000	20999
Deletion	Chr9	7835001	7846000	10999	3
Deletion	Chr8	7859001	7873000	13999
Deletion	Chr5	7964001	7977000	12999	3
Deletion	Chr6	8237001	8257000	19999	2
Deletion	Chr2	8388001	8394000	5999	OsKitaake02g106600
Deletion	Chr3	8463001	8473000	9999	OsKitaake03g116100
Deletion	Chr4	8643001	8659000	15999	2
Deletion	Chr9	8752001	8775000	22999	OsKitaake09g051400
Deletion	Chr4	8929001	8950000	20999	OsKitaake04g046100
Deletion	Chr11	9464001	9485000	20999	2
Deletion	Chr7	9487825	9487835	10
Deletion	Chr5	9573001	9588000	14999
Deletion	Chr4	10186001	10218000	31999
Deletion	Chr2	10268738	10268743	5
Deletion	Chr4	10496001	10557000	60999	OsKitaake04g055600
Deletion	Chr7	10733001	10744000	10999	2
Deletion	Chr1	10964194	10964197	3
Deletion	Chr11	11380001	11394000	13999
Deletion	Chr8	11432001	11494000	61999	3
Deletion	Chr6	11476001	11495000	18999	OsKitaake06g126800
Deletion	Chr12	12168001	12188000	19999
Deletion	Chr5	12513001	12574000	60999
Deletion	Chr2	12749001	12765000	15999	4
Deletion	Chr3	13108001	13122000	13999	2
Deletion	Chr8	13203001	13262000	58999
Deletion	Chr5	13826001	13839000	12999	3
Deletion	Chr2	13847001	13858000	10999
Deletion	Chr10	13867001	13890000	22999	OsKitaake10g084800
Deletion	Chr9	13921159	13921162	3
Deletion	Chr9	14138001	14167000	28999	2
Deletion	Chr1	14645001	14696000	50999	2
Deletion	Chr6	15210501	15210502	1
Deletion	Chr3	15547001	15579000	31999
Deletion	Chr2	16068001	16112000	43999	OsKitaake02g166300
Deletion	Chr8	16562001	16580000	17999	4
Deletion	Chr8	16813001	16823000	9999
Deletion	Chr5	17063001	17096000	32999	OsKitaake05g131400
Deletion	Chr4	17090001	17102000	11999	OsKitaake04g083400
Deletion	Chr2	17109001	17149000	39999	3
Deletion	Chr1	17232001	17244000	11999
Deletion	Chr12	17388724	17388726	2
Deletion	Chr10	17472001	17504000	31999	2
Deletion	Chr2	17541001	17559000	17999	OsKitaake02g176100
Deletion	Chr8	18078001	18115000	36999	OsKitaake08g134500
Deletion	Chr5	18123930	18123935	5
Deletion	Chr12	19273001	19282000	8999	OsKitaake12g144200
Deletion	Chr4	19340001	19364000	23999	OsKitaake04g098600
Deletion	Chr4	19635001	19667000	31999	2
Deletion	Chr8	19685001	19717000	31999	2
Deletion	Chr3	19995001	20030000	34999	OsKitaake03g230101
Deletion	Chr3	20262001	20289000	26999
Deletion	Chr1	20684001	20701000	16999	OsKitaake01g202700
Deletion	Chr2	20764001	20792000	27999	OsKitaake02g201300
Deletion	Chr8	21043125	21043127	2
Deletion	Chr9	21308001	21331000	22999	2
Deletion	Chr1	21551001	21577000	25999	OsKitaake01g207900
Deletion	Chr12	21618001	21632000	13999
Deletion	Chr3	22309001	22320000	10999	OsKitaake03g242600
Deletion	Chr1	22495325	22495326	1
Deletion	Chr10	22688001	22698000	9999	OsKitaake10g187800
Deletion	Chr1	22819296	22819301	5
Deletion	Chr1	23258001	23271000	12999	OsKitaake01g222400
Deletion	Chr12	23797001	23870000	72999	11
Deletion	Chr3	24061001	24071000	9999	OsKitaake03g257300
Deletion	Chr8	24207633	24207637	4
Deletion	Chr12	24378001	24397000	18999	3
Deletion	Chr2	24406001	24432000	25999
Deletion	Chr8	24969001	24993000	23999	OsKitaake08g194166
Deletion	Chr3	25214001	25230000	15999	OsKitaake03g266800
Deletion	Chr6	25259001	25275000	15999	OsKitaake06g223800
Deletion	Chr2	25660097	25660109	12
Deletion	Chr7	26295001	26306000	10999	OsKitaake07g242100
Deletion	Chr12	26725001	26739000	13999	OsKitaake12g222100
Deletion	Chr7	26846001	26864000	17999	OsKitaake07g250200
Deletion	Chr12	27038896	27038900	4
Deletion	Chr12	27141001	27154000	12999
Deletion	Chr6	27778001	27790000	11999
Deletion	Chr3	28183001	28218000	34999	5
Deletion	Chr7	28245001	28259000	13999	2
Deletion	Chr6	28337001	28350000	12999
Deletion	Chr6	28480518	28480519	1
Deletion	Chr3	28655001	28669000	13999
Deletion	Chr6	29849362	29849363	1	OsKitaake06g279300
Deletion	Chr4	32961799	32961804	5
Deletion	Chr1	33453001	33469000	15999	OsKitaake01g342500
Deletion	Chr1	33738001	33755000	16999	OsKitaake01g346400
Deletion	Chr1	41462001	41478000	15999
Deletion	Chr1	42310001	42328000	17999	OsKitaake01g466400
Deletion	Chr1	42858266	42858271	5
Deletion	Chr1	43011001	43026000	14999	OsKitaake01g474600

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	1256401	1344889	OsKitaake08g016200
Inversion	Chr8	1256429	1345929	OsKitaake08g016200
Inversion	Chr7	24633781	24634511
Inversion	Chr6	28721224	29357762	OsKitaake06g271900
Inversion	Chr6	28721225	29357762	OsKitaake06g271900

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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