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Mutant Information

Mutant Name	FN900-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN900-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: 21

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 557579 C-T Hetero INTERGENIC
SBS Chr2 3111880 C-T Hetero INTERGENIC
SBS Chr2 7681508 G-T Hetero INTERGENIC
SBS Chr3 36525155 T-A Hetero INTERGENIC
SBS Chr4 5102954 G-A Hetero INTERGENIC
SBS Chr4 5102957 C-A Hetero INTERGENIC
SBS Chr4 10559742 C-T Hetero INTERGENIC
SBS Chr4 11534245 A-G Hetero INTERGENIC
SBS Chr4 13822242 C-T Hetero INTRON
SBS Chr4 14486785 G-T Hetero INTERGENIC
SBS Chr5 22896061 C-G Hetero INTERGENIC
SBS Chr7 10388946 C-T Hetero INTERGENIC
SBS Chr7 13964797 C-T Hetero INTERGENIC
SBS Chr7 22612161 C-T Hetero INTERGENIC
SBS Chr8 5474073 T-G Hetero INTERGENIC
SBS Chr8 6411798 A-G Homo INTERGENIC
SBS Chr9 3469226 C-T Hetero INTERGENIC
SBS Chr9 8207214 G-A Hetero INTERGENIC
SBS Chr10 19794730 T-A Hetero INTRON
SBS Chr10 19798202 T-C Hetero INTERGENIC
SBS Chr10 23733870 G-T Hetero INTERGENIC

Deletions: 18

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr7 878142 878145 3
Deletion Chr12 1485718 1486109 391
Deletion Chr9 1714801 1714810 9
Deletion Chr5 1997425 1997426 1
Deletion Chr8 3597126 3597137 11
Deletion Chr3 4441951 4441953 2
Deletion Chr9 7069875 7069876 1
Deletion Chr2 8871715 8871717 2
Deletion Chr4 10575614 10575623 9
Deletion Chr2 13440571 13440574 3
Deletion Chr2 13621554 13621555 1
Deletion Chr5 17118001 17153000 34999
Deletion Chr12 18339464 18339531 67
Deletion Chr9 20853019 20853024 5 OsKitaake09g177900
Deletion Chr1 22603399 22603406 7
Deletion Chr3 23964555 23964559 4
Deletion Chr8 26992063 26992068 5
Deletion Chr11 27640885 27640995 110

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 5441273 5441278 4
Insertion Chr4 12070898 12070900 1
Insertion Chr8 4333353 4333356 2
Insertion Chr10 11157251 11157254 2
Insertion Chr10 13599624 13599627 2
Insertion Chr12 20146354 20146356 1 OsKitaake12g154800

Inversions: 9

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr6 2838379 3404730 2
Inversion Chr6 2838420 3404731 2
Inversion Chr4 4487154 5104300 OsKitaake04g024300
Inversion Chr4 10867876 10895821
Inversion Chr4 10867917 11452013
Inversion Chr4 10895888 11454420
Inversion Chr4 11452011 11610642
Inversion Chr4 11509950 11933103
Inversion Chr4 11511258 11933516

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	557579	C-T	Hetero	INTERGENIC
SBS	Chr2	3111880	C-T	Hetero	INTERGENIC
SBS	Chr2	7681508	G-T	Hetero	INTERGENIC
SBS	Chr3	36525155	T-A	Hetero	INTERGENIC
SBS	Chr4	5102954	G-A	Hetero	INTERGENIC
SBS	Chr4	5102957	C-A	Hetero	INTERGENIC
SBS	Chr4	10559742	C-T	Hetero	INTERGENIC
SBS	Chr4	11534245	A-G	Hetero	INTERGENIC
SBS	Chr4	13822242	C-T	Hetero	INTRON
SBS	Chr4	14486785	G-T	Hetero	INTERGENIC
SBS	Chr5	22896061	C-G	Hetero	INTERGENIC
SBS	Chr7	10388946	C-T	Hetero	INTERGENIC
SBS	Chr7	13964797	C-T	Hetero	INTERGENIC
SBS	Chr7	22612161	C-T	Hetero	INTERGENIC
SBS	Chr8	5474073	T-G	Hetero	INTERGENIC
SBS	Chr8	6411798	A-G	Homo	INTERGENIC
SBS	Chr9	3469226	C-T	Hetero	INTERGENIC
SBS	Chr9	8207214	G-A	Hetero	INTERGENIC
SBS	Chr10	19794730	T-A	Hetero	INTRON
SBS	Chr10	19798202	T-C	Hetero	INTERGENIC
SBS	Chr10	23733870	G-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr7	878142	878145	3
Deletion	Chr12	1485718	1486109	391
Deletion	Chr9	1714801	1714810	9
Deletion	Chr5	1997425	1997426	1
Deletion	Chr8	3597126	3597137	11
Deletion	Chr3	4441951	4441953	2
Deletion	Chr9	7069875	7069876	1
Deletion	Chr2	8871715	8871717	2
Deletion	Chr4	10575614	10575623	9
Deletion	Chr2	13440571	13440574	3
Deletion	Chr2	13621554	13621555	1
Deletion	Chr5	17118001	17153000	34999
Deletion	Chr12	18339464	18339531	67
Deletion	Chr9	20853019	20853024	5	OsKitaake09g177900
Deletion	Chr1	22603399	22603406	7
Deletion	Chr3	23964555	23964559	4
Deletion	Chr8	26992063	26992068	5
Deletion	Chr11	27640885	27640995	110

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	2838379	3404730	2
Inversion	Chr6	2838420	3404731	2
Inversion	Chr4	4487154	5104300	OsKitaake04g024300
Inversion	Chr4	10867876	10895821
Inversion	Chr4	10867917	11452013
Inversion	Chr4	10895888	11454420
Inversion	Chr4	11452011	11610642
Inversion	Chr4	11509950	11933103
Inversion	Chr4	11511258	11933516

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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