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Mutant Information

Mutant Name	FN1473-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1473-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 10068563 T-C Hetero INTERGENIC
SBS Chr1 17090481 G-A Hetero INTERGENIC
SBS Chr1 42915903 C-T Homo SPLICE_SITE_REGION
SBS Chr2 10280343 T-A Hetero INTERGENIC
SBS Chr2 11476635 C-T Hetero INTERGENIC
SBS Chr2 27779561 A-T Hetero INTERGENIC
SBS Chr3 1928613 C-A Homo NON_SYNONYMOUS_CODING OsKitaake03g027600
SBS Chr3 3094007 C-T Homo INTERGENIC
SBS Chr3 13385395 G-A Hetero INTERGENIC
SBS Chr4 24495423 A-G Homo INTERGENIC
SBS Chr5 23144303 A-T Homo INTERGENIC
SBS Chr5 25944145 C-T Homo INTERGENIC
SBS Chr6 1181516 G-A Homo INTERGENIC
SBS Chr6 7607587 G-A Hetero INTERGENIC
SBS Chr6 15303861 G-A Hetero INTERGENIC
SBS Chr6 15869161 C-T Hetero INTERGENIC
SBS Chr6 19836266 G-A Homo INTERGENIC
SBS Chr6 20973027 C-T Hetero INTERGENIC
SBS Chr6 25478940 G-A Hetero SYNONYMOUS_CODING
SBS Chr7 14730975 A-T Hetero INTERGENIC
SBS Chr7 18625661 G-T Hetero INTERGENIC
SBS Chr7 21914713 C-T Homo INTERGENIC
SBS Chr8 6908418 C-G Homo INTERGENIC
SBS Chr8 22315514 T-A Homo INTERGENIC
SBS Chr9 14175033 C-T Hetero INTERGENIC
SBS Chr9 15377251 A-G Homo INTERGENIC
SBS Chr10 7712512 C-T Hetero INTERGENIC
SBS Chr10 9128562 T-G Hetero INTERGENIC
SBS Chr11 5007753 C-A Hetero INTERGENIC
SBS Chr11 8365370 A-G Homo INTERGENIC
SBS Chr11 14674067 G-A Homo INTERGENIC
SBS Chr11 16297000 G-T Homo INTERGENIC
SBS Chr11 18576158 C-A Homo INTERGENIC

Deletions: 53

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 348001 387000 38999 3
Deletion Chr2 928001 942000 13999 3
Deletion Chr2 1635001 1652000 16999 2
Deletion Chr3 1674001 1690000 15999 OsKitaake03g023750
Deletion Chr8 2060001 2080000 19999 3
Deletion Chr7 2848662 2848663 1
Deletion Chr7 3366001 3400000 33999 5
Deletion Chr1 4470001 4480000 9999 OsKitaake01g059500
Deletion Chr8 4770001 4794000 23999 3
Deletion Chr12 4868001 4879000 10999 OsKitaake12g063000
Deletion Chr7 5983001 6010000 26999 2
Deletion Chr8 9331001 9361000 29999 3
Deletion Chr4 9480408 9480580 172
Deletion Chr10 10487001 10499000 11999 OsKitaake10g061300
Deletion Chr11 10529628 10529629 1 OsKitaake11g104700
Deletion Chr6 11477001 11494000 16999 OsKitaake06g126800
Deletion Chr10 12476001 12499000 22999 4
Deletion Chr4 14332001 14342000 9999
Deletion Chr9 15258001 15330000 71999 18
Deletion Chr7 17711001 17726000 14999 2
Deletion Chr4 17767337 17767450 113
Deletion Chr6 18349001 18381000 31999 OsKitaake06g168100
Deletion Chr10 18502001 18542000 39999 9
Deletion Chr7 18510001 18542000 31999 3
Deletion Chr3 18897752 18897754 2
Deletion Chr10 19373001 19386000 12999 OsKitaake10g141100
Deletion Chr4 19435001 19449000 13999 OsKitaake04g099601
Deletion Chr3 20337876 20337877 1
Deletion Chr5 20492548 20492549 1
Deletion Chr8 21605342 21605343 1
Deletion Chr2 21715862 21715871 9 OsKitaake02g210800
Deletion Chr11 22572001 22579000 6999 OsKitaake11g179100
Deletion Chr10 22686001 22701000 14999 OsKitaake10g187800
Deletion Chr2 22858001 22867000 8999 OsKitaake02g222400
Deletion Chr7 22892001 22911000 18999 2
Deletion Chr1 23252001 23272000 19999 OsKitaake01g222400
Deletion Chr1 23741001 23778000 36999 3
Deletion Chr1 25037097 25037098 1 OsKitaake01g242300
Deletion Chr8 25957416 25957425 9
Deletion Chr1 26054001 26077000 22999 2
Deletion Chr4 26730001 26739000 8999 OsKitaake04g193100
Deletion Chr8 27326001 27347000 20999 5
Deletion Chr7 27680001 27688000 7999 OsKitaake07g258500
Deletion Chr6 27917001 27938000 20999 OsKitaake06g253400
Deletion Chr8 28137001 28166000 28999 4
Deletion Chr3 30869001 30886000 16999 2
Deletion Chr6 30976001 30989000 12999 2
Deletion Chr4 33105001 33118000 12999 2
Deletion Chr1 33445001 33475000 29999 2
Deletion Chr2 34515001 34524000 8999 OsKitaake02g358800
Deletion Chr2 34597001 34626000 28999 3
Deletion Chr1 38702001 38715000 12999 OsKitaake01g413900
Deletion Chr1 42305001 42312000 6999 OsKitaake01g466400

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 4060072 4060075 2
Insertion Chr12 10596599 10596602 2
Insertion Chr2 13850924 13850926 1
Insertion Chr10 8267973 8267982 8

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10068563	T-C	Hetero	INTERGENIC
SBS	Chr1	17090481	G-A	Hetero	INTERGENIC
SBS	Chr1	42915903	C-T	Homo	SPLICE_SITE_REGION
SBS	Chr2	10280343	T-A	Hetero	INTERGENIC
SBS	Chr2	11476635	C-T	Hetero	INTERGENIC
SBS	Chr2	27779561	A-T	Hetero	INTERGENIC
SBS	Chr3	1928613	C-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake03g027600
SBS	Chr3	3094007	C-T	Homo	INTERGENIC
SBS	Chr3	13385395	G-A	Hetero	INTERGENIC
SBS	Chr4	24495423	A-G	Homo	INTERGENIC
SBS	Chr5	23144303	A-T	Homo	INTERGENIC
SBS	Chr5	25944145	C-T	Homo	INTERGENIC
SBS	Chr6	1181516	G-A	Homo	INTERGENIC
SBS	Chr6	7607587	G-A	Hetero	INTERGENIC
SBS	Chr6	15303861	G-A	Hetero	INTERGENIC
SBS	Chr6	15869161	C-T	Hetero	INTERGENIC
SBS	Chr6	19836266	G-A	Homo	INTERGENIC
SBS	Chr6	20973027	C-T	Hetero	INTERGENIC
SBS	Chr6	25478940	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr7	14730975	A-T	Hetero	INTERGENIC
SBS	Chr7	18625661	G-T	Hetero	INTERGENIC
SBS	Chr7	21914713	C-T	Homo	INTERGENIC
SBS	Chr8	6908418	C-G	Homo	INTERGENIC
SBS	Chr8	22315514	T-A	Homo	INTERGENIC
SBS	Chr9	14175033	C-T	Hetero	INTERGENIC
SBS	Chr9	15377251	A-G	Homo	INTERGENIC
SBS	Chr10	7712512	C-T	Hetero	INTERGENIC
SBS	Chr10	9128562	T-G	Hetero	INTERGENIC
SBS	Chr11	5007753	C-A	Hetero	INTERGENIC
SBS	Chr11	8365370	A-G	Homo	INTERGENIC
SBS	Chr11	14674067	G-A	Homo	INTERGENIC
SBS	Chr11	16297000	G-T	Homo	INTERGENIC
SBS	Chr11	18576158	C-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	348001	387000	38999	3
Deletion	Chr2	928001	942000	13999	3
Deletion	Chr2	1635001	1652000	16999	2
Deletion	Chr3	1674001	1690000	15999	OsKitaake03g023750
Deletion	Chr8	2060001	2080000	19999	3
Deletion	Chr7	2848662	2848663	1
Deletion	Chr7	3366001	3400000	33999	5
Deletion	Chr1	4470001	4480000	9999	OsKitaake01g059500
Deletion	Chr8	4770001	4794000	23999	3
Deletion	Chr12	4868001	4879000	10999	OsKitaake12g063000
Deletion	Chr7	5983001	6010000	26999	2
Deletion	Chr8	9331001	9361000	29999	3
Deletion	Chr4	9480408	9480580	172
Deletion	Chr10	10487001	10499000	11999	OsKitaake10g061300
Deletion	Chr11	10529628	10529629	1	OsKitaake11g104700
Deletion	Chr6	11477001	11494000	16999	OsKitaake06g126800
Deletion	Chr10	12476001	12499000	22999	4
Deletion	Chr4	14332001	14342000	9999
Deletion	Chr9	15258001	15330000	71999	18
Deletion	Chr7	17711001	17726000	14999	2
Deletion	Chr4	17767337	17767450	113
Deletion	Chr6	18349001	18381000	31999	OsKitaake06g168100
Deletion	Chr10	18502001	18542000	39999	9
Deletion	Chr7	18510001	18542000	31999	3
Deletion	Chr3	18897752	18897754	2
Deletion	Chr10	19373001	19386000	12999	OsKitaake10g141100
Deletion	Chr4	19435001	19449000	13999	OsKitaake04g099601
Deletion	Chr3	20337876	20337877	1
Deletion	Chr5	20492548	20492549	1
Deletion	Chr8	21605342	21605343	1
Deletion	Chr2	21715862	21715871	9	OsKitaake02g210800
Deletion	Chr11	22572001	22579000	6999	OsKitaake11g179100
Deletion	Chr10	22686001	22701000	14999	OsKitaake10g187800
Deletion	Chr2	22858001	22867000	8999	OsKitaake02g222400
Deletion	Chr7	22892001	22911000	18999	2
Deletion	Chr1	23252001	23272000	19999	OsKitaake01g222400
Deletion	Chr1	23741001	23778000	36999	3
Deletion	Chr1	25037097	25037098	1	OsKitaake01g242300
Deletion	Chr8	25957416	25957425	9
Deletion	Chr1	26054001	26077000	22999	2
Deletion	Chr4	26730001	26739000	8999	OsKitaake04g193100
Deletion	Chr8	27326001	27347000	20999	5
Deletion	Chr7	27680001	27688000	7999	OsKitaake07g258500
Deletion	Chr6	27917001	27938000	20999	OsKitaake06g253400
Deletion	Chr8	28137001	28166000	28999	4
Deletion	Chr3	30869001	30886000	16999	2
Deletion	Chr6	30976001	30989000	12999	2
Deletion	Chr4	33105001	33118000	12999	2
Deletion	Chr1	33445001	33475000	29999	2
Deletion	Chr2	34515001	34524000	8999	OsKitaake02g358800
Deletion	Chr2	34597001	34626000	28999	3
Deletion	Chr1	38702001	38715000	12999	OsKitaake01g413900
Deletion	Chr1	42305001	42312000	6999	OsKitaake01g466400

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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