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Mutant Information

Mutant Name	FN2179-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2179-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 Chr2 4905428 T-A Homo INTERGENIC
SBS Chr2 17040269 C-T Hetero INTERGENIC
SBS Chr2 17618123 G-A Hetero SYNONYMOUS_CODING
SBS Chr3 14433693 C-T Hetero INTERGENIC
SBS Chr4 10935347 G-A Hetero INTERGENIC
SBS Chr4 14988471 A-G Hetero INTERGENIC
SBS Chr4 22253716 G-A Hetero INTERGENIC
SBS Chr4 27700303 T-A Hetero INTERGENIC
SBS Chr5 21054567 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake05g169300
SBS Chr5 26737282 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake05g239100
SBS Chr6 4139973 G-T Homo INTERGENIC
SBS Chr6 16799011 T-C Hetero INTRON
SBS Chr6 23566650 G-A Hetero INTERGENIC
SBS Chr7 7164523 G-A Hetero INTERGENIC
SBS Chr7 8629322 A-G Homo INTERGENIC
SBS Chr7 25150169 C-T Homo INTERGENIC
SBS Chr7 28689828 T-A Homo INTERGENIC
SBS Chr8 929277 A-G Homo NON_SYNONYMOUS_CODING OsKitaake08g012200
SBS Chr8 1083566 C-T Homo INTERGENIC
SBS Chr8 11157724 C-A Hetero INTERGENIC
SBS Chr8 16794716 T-A Hetero INTERGENIC
SBS Chr9 16718639 A-G Homo INTERGENIC
SBS Chr9 19398738 G-A Homo INTERGENIC
SBS Chr10 1355872 T-G Homo INTERGENIC
SBS Chr10 12436008 C-A Hetero INTERGENIC
SBS Chr11 13241737 C-T Hetero INTERGENIC
SBS Chr11 15258389 C-T Hetero INTERGENIC
SBS Chr11 20065600 G-T Hetero INTERGENIC
SBS Chr11 28185806 C-T Hetero INTERGENIC
SBS Chr12 901259 G-A Hetero INTERGENIC
SBS Chr12 7952246 T-A Hetero INTRON
SBS Chr12 15061780 C-G Hetero INTERGENIC

Deletions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr12 3544571 3544574 3
Deletion Chr12 4549771 4549772 1 OsKitaake12g060500
Deletion Chr9 21141028 21141032 4
Deletion Chr1 22215216 22215221 5
Deletion Chr1 32725079 32725081 2
Deletion Chr1 42670727 42671062 335

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 25825581 25825584 2
Insertion Chr11 8197167 8197170 2
Insertion Chr8 29297879 29297882 2
Insertion Chr9 10160983 10160987 3

Inversions: 8

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 8444644 9238862 2
Inversion Chr2 8444648 9238903 2
Inversion Chr3 15842850 16137429
Inversion Chr11 18595758 18696546
Inversion Chr7 18613324 18781385 2
Inversion Chr7 18613332 18781388 2
Inversion Chr5 21257330 21448855 OsKitaake05g174100
Inversion Chr5 21407763 21813900 OsKitaake05g178200

Translocations: 3

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr6 14767496 Chr3 16137437
Translocation Chr6 14768482 Chr3 15842859
Translocation Chr6 14769060 Chr1 4067952 OsKitaake01g054700

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr2	4905428	T-A	Homo	INTERGENIC
SBS	Chr2	17040269	C-T	Hetero	INTERGENIC
SBS	Chr2	17618123	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr3	14433693	C-T	Hetero	INTERGENIC
SBS	Chr4	10935347	G-A	Hetero	INTERGENIC
SBS	Chr4	14988471	A-G	Hetero	INTERGENIC
SBS	Chr4	22253716	G-A	Hetero	INTERGENIC
SBS	Chr4	27700303	T-A	Hetero	INTERGENIC
SBS	Chr5	21054567	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g169300
SBS	Chr5	26737282	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g239100
SBS	Chr6	4139973	G-T	Homo	INTERGENIC
SBS	Chr6	16799011	T-C	Hetero	INTRON
SBS	Chr6	23566650	G-A	Hetero	INTERGENIC
SBS	Chr7	7164523	G-A	Hetero	INTERGENIC
SBS	Chr7	8629322	A-G	Homo	INTERGENIC
SBS	Chr7	25150169	C-T	Homo	INTERGENIC
SBS	Chr7	28689828	T-A	Homo	INTERGENIC
SBS	Chr8	929277	A-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake08g012200
SBS	Chr8	1083566	C-T	Homo	INTERGENIC
SBS	Chr8	11157724	C-A	Hetero	INTERGENIC
SBS	Chr8	16794716	T-A	Hetero	INTERGENIC
SBS	Chr9	16718639	A-G	Homo	INTERGENIC
SBS	Chr9	19398738	G-A	Homo	INTERGENIC
SBS	Chr10	1355872	T-G	Homo	INTERGENIC
SBS	Chr10	12436008	C-A	Hetero	INTERGENIC
SBS	Chr11	13241737	C-T	Hetero	INTERGENIC
SBS	Chr11	15258389	C-T	Hetero	INTERGENIC
SBS	Chr11	20065600	G-T	Hetero	INTERGENIC
SBS	Chr11	28185806	C-T	Hetero	INTERGENIC
SBS	Chr12	901259	G-A	Hetero	INTERGENIC
SBS	Chr12	7952246	T-A	Hetero	INTRON
SBS	Chr12	15061780	C-G	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr12	3544571	3544574	3
Deletion	Chr12	4549771	4549772	1	OsKitaake12g060500
Deletion	Chr9	21141028	21141032	4
Deletion	Chr1	22215216	22215221	5
Deletion	Chr1	32725079	32725081	2
Deletion	Chr1	42670727	42671062	335

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	8444644	9238862	2
Inversion	Chr2	8444648	9238903	2
Inversion	Chr3	15842850	16137429
Inversion	Chr11	18595758	18696546
Inversion	Chr7	18613324	18781385	2
Inversion	Chr7	18613332	18781388	2
Inversion	Chr5	21257330	21448855	OsKitaake05g174100
Inversion	Chr5	21407763	21813900	OsKitaake05g178200

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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