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Mutant Information

Mutant Name	FN2177-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2177-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: 45

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 6525270 T-C Homo INTERGENIC
SBS Chr1 8600726 A-G Hetero INTERGENIC
SBS Chr1 14262458 C-T Homo INTERGENIC
SBS Chr1 17262645 G-T Hetero INTERGENIC
SBS Chr1 23973286 A-G Homo INTERGENIC
SBS Chr1 25831747 A-G Hetero INTERGENIC
SBS Chr1 38323597 C-A Hetero INTRON
SBS Chr2 11839205 T-A Homo INTERGENIC
SBS Chr2 23121873 G-A Hetero INTERGENIC
SBS Chr2 25686073 G-C Hetero SYNONYMOUS_CODING
SBS Chr3 1005686 A-T Homo INTERGENIC
SBS Chr3 1005687 C-T Homo INTERGENIC
SBS Chr3 3861159 G-A Homo NON_SYNONYMOUS_CODING OsKitaake03g055000
SBS Chr3 6679633 G-A Homo INTERGENIC
SBS Chr3 25065704 C-T Hetero INTERGENIC
SBS Chr3 26382978 T-A Hetero INTERGENIC
SBS Chr3 32047654 T-G Hetero INTERGENIC
SBS Chr3 37125286 G-A Hetero UTR_3_PRIME
SBS Chr4 10722537 C-A Hetero INTERGENIC
SBS Chr4 13675537 C-A Hetero INTERGENIC
SBS Chr4 14266797 G-A Hetero INTERGENIC
SBS Chr4 17151005 T-A Homo INTERGENIC
SBS Chr4 29125019 T-G Hetero INTRON
SBS Chr4 29679112 A-G Hetero INTRON
SBS Chr5 18633880 C-T Hetero INTERGENIC
SBS Chr6 9340195 C-T Hetero INTRON
SBS Chr6 10987043 G-A Hetero INTERGENIC
SBS Chr6 28698932 G-A Hetero INTRON
SBS Chr6 28698937 C-T Hetero INTRON
SBS Chr7 1581066 G-A Hetero INTERGENIC
SBS Chr7 7987391 A-T Hetero INTERGENIC
SBS Chr7 12898411 C-A Hetero INTERGENIC
SBS Chr7 26463081 A-G Hetero INTERGENIC
SBS Chr7 27626471 C-G Hetero INTERGENIC
SBS Chr8 947941 G-T Hetero UTR_3_PRIME
SBS Chr8 12913440 G-C Hetero INTERGENIC
SBS Chr8 27245822 G-A Homo INTERGENIC
SBS Chr9 15531679 G-C Homo INTERGENIC
SBS Chr10 4427138 T-A Hetero INTERGENIC
SBS Chr10 21900605 C-T Homo INTERGENIC
SBS Chr11 15563970 G-A Homo INTERGENIC
SBS Chr11 19076154 A-G Hetero INTERGENIC
SBS Chr12 6820473 T-A Hetero INTERGENIC
SBS Chr12 11881417 C-T Hetero INTERGENIC
SBS Chr12 19393209 T-C Hetero SYNONYMOUS_CODING

Deletions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr8 376946 376959 13 OsKitaake08g005700
Deletion Chr3 3834560 3834561 1
Deletion Chr3 4868960 4868965 5
Deletion Chr2 10109416 10109419 3
Deletion Chr5 15426733 15426735 2 OsKitaake05g118300
Deletion Chr4 16603567 16603575 8
Deletion Chr1 16608354 16608365 11
Deletion Chr9 21474074 21474076 2 OsKitaake09g187700
Deletion Chr5 21736047 21736058 11
Deletion Chr8 24241015 24241019 4
Deletion Chr4 34820360 34820368 8

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 10926417 10926420 2
Insertion Chr2 8493493 8493496 2
Insertion Chr6 2003961 2003964 2
Insertion Chr7 12775239 12775241 1
Insertion Chr4 4771841 4771843 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr1 2121992 2413991
Inversion Chr1 2122010 2413998
Inversion Chr9 20550015 20936005 OsKitaake09g173800
Inversion Chr9 20550030 20936011 OsKitaake09g173800

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 7250741 Chr4 36578662
Translocation Chr11 7251394 Chr4 36578655
Translocation Chr9 21669623 Chr7 13877864
Translocation Chr9 21669630 Chr7 13869538

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	6525270	T-C	Homo	INTERGENIC
SBS	Chr1	8600726	A-G	Hetero	INTERGENIC
SBS	Chr1	14262458	C-T	Homo	INTERGENIC
SBS	Chr1	17262645	G-T	Hetero	INTERGENIC
SBS	Chr1	23973286	A-G	Homo	INTERGENIC
SBS	Chr1	25831747	A-G	Hetero	INTERGENIC
SBS	Chr1	38323597	C-A	Hetero	INTRON
SBS	Chr2	11839205	T-A	Homo	INTERGENIC
SBS	Chr2	23121873	G-A	Hetero	INTERGENIC
SBS	Chr2	25686073	G-C	Hetero	SYNONYMOUS_CODING
SBS	Chr3	1005686	A-T	Homo	INTERGENIC
SBS	Chr3	1005687	C-T	Homo	INTERGENIC
SBS	Chr3	3861159	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake03g055000
SBS	Chr3	6679633	G-A	Homo	INTERGENIC
SBS	Chr3	25065704	C-T	Hetero	INTERGENIC
SBS	Chr3	26382978	T-A	Hetero	INTERGENIC
SBS	Chr3	32047654	T-G	Hetero	INTERGENIC
SBS	Chr3	37125286	G-A	Hetero	UTR_3_PRIME
SBS	Chr4	10722537	C-A	Hetero	INTERGENIC
SBS	Chr4	13675537	C-A	Hetero	INTERGENIC
SBS	Chr4	14266797	G-A	Hetero	INTERGENIC
SBS	Chr4	17151005	T-A	Homo	INTERGENIC
SBS	Chr4	29125019	T-G	Hetero	INTRON
SBS	Chr4	29679112	A-G	Hetero	INTRON
SBS	Chr5	18633880	C-T	Hetero	INTERGENIC
SBS	Chr6	9340195	C-T	Hetero	INTRON
SBS	Chr6	10987043	G-A	Hetero	INTERGENIC
SBS	Chr6	28698932	G-A	Hetero	INTRON
SBS	Chr6	28698937	C-T	Hetero	INTRON
SBS	Chr7	1581066	G-A	Hetero	INTERGENIC
SBS	Chr7	7987391	A-T	Hetero	INTERGENIC
SBS	Chr7	12898411	C-A	Hetero	INTERGENIC
SBS	Chr7	26463081	A-G	Hetero	INTERGENIC
SBS	Chr7	27626471	C-G	Hetero	INTERGENIC
SBS	Chr8	947941	G-T	Hetero	UTR_3_PRIME
SBS	Chr8	12913440	G-C	Hetero	INTERGENIC
SBS	Chr8	27245822	G-A	Homo	INTERGENIC
SBS	Chr9	15531679	G-C	Homo	INTERGENIC
SBS	Chr10	4427138	T-A	Hetero	INTERGENIC
SBS	Chr10	21900605	C-T	Homo	INTERGENIC
SBS	Chr11	15563970	G-A	Homo	INTERGENIC
SBS	Chr11	19076154	A-G	Hetero	INTERGENIC
SBS	Chr12	6820473	T-A	Hetero	INTERGENIC
SBS	Chr12	11881417	C-T	Hetero	INTERGENIC
SBS	Chr12	19393209	T-C	Hetero	SYNONYMOUS_CODING

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr8	376946	376959	13	OsKitaake08g005700
Deletion	Chr3	3834560	3834561	1
Deletion	Chr3	4868960	4868965	5
Deletion	Chr2	10109416	10109419	3
Deletion	Chr5	15426733	15426735	2	OsKitaake05g118300
Deletion	Chr4	16603567	16603575	8
Deletion	Chr1	16608354	16608365	11
Deletion	Chr9	21474074	21474076	2	OsKitaake09g187700
Deletion	Chr5	21736047	21736058	11
Deletion	Chr8	24241015	24241019	4
Deletion	Chr4	34820360	34820368	8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	2121992	2413991
Inversion	Chr1	2122010	2413998
Inversion	Chr9	20550015	20936005	OsKitaake09g173800
Inversion	Chr9	20550030	20936011	OsKitaake09g173800

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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