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Mutant Information

Mutant Name	N1-169-7 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download N1-169-7 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: 39

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 23727003 G-A Homo INTERGENIC
SBS Chr1 32694971 A-T Homo INTERGENIC
SBS Chr1 42597663 C-T Hetero INTERGENIC
SBS Chr2 17777239 G-A Hetero INTERGENIC
SBS Chr2 30458717 A-T Homo SYNONYMOUS_CODING
SBS Chr3 6872553 G-A Hetero INTERGENIC
SBS Chr3 12967649 A-T Hetero INTRON
SBS Chr3 27071850 G-A Homo INTERGENIC
SBS Chr3 32010501 T-A Homo INTERGENIC
SBS Chr3 37079661 T-A Hetero INTRON
SBS Chr4 5010429 G-T Hetero INTERGENIC
SBS Chr4 7539500 A-G Homo INTERGENIC
SBS Chr4 31659425 G-A Homo UTR_3_PRIME
SBS Chr4 31659426 C-A Homo UTR_3_PRIME
SBS Chr5 3136458 A-T Hetero INTERGENIC
SBS Chr5 27736468 C-T Homo INTRON
SBS Chr5 27736469 G-A Homo INTRON
SBS Chr6 10348527 G-T Homo NON_SYNONYMOUS_CODING OsKitaake06g117200
SBS Chr6 10840802 C-A Homo INTERGENIC
SBS Chr6 20327187 G-A Homo INTRON
SBS Chr6 25415483 C-T Hetero INTERGENIC
SBS Chr7 14317356 C-T Hetero INTRON
SBS Chr7 14579696 G-A Hetero INTERGENIC
SBS Chr7 15285859 T-A Hetero INTERGENIC
SBS Chr8 509201 C-T Hetero INTERGENIC
SBS Chr8 3249859 C-T Hetero INTERGENIC
SBS Chr8 25977114 A-T Hetero INTERGENIC
SBS Chr9 5484440 T-A Homo INTERGENIC
SBS Chr9 10912260 A-T Homo INTERGENIC
SBS Chr10 1019831 T-A Hetero INTERGENIC
SBS Chr10 19567459 G-A Homo SYNONYMOUS_CODING
SBS Chr10 19580590 C-G Homo UTR_3_PRIME
SBS Chr11 5396582 T-A Homo INTERGENIC
SBS Chr11 11028395 C-G Hetero INTERGENIC
SBS Chr11 16125326 C-A Homo INTERGENIC
SBS Chr11 18997349 G-C Homo INTERGENIC
SBS Chr11 26482651 G-A Homo INTERGENIC
SBS Chr12 14743116 A-T Homo INTERGENIC
SBS Chr12 15515046 A-T Hetero INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 26063 26415 352
Deletion Chr3 52182 52184 2
Deletion Chr11 2375977 2375979 2
Deletion Chr11 9802937 9802938 1
Deletion Chr9 19245928 19245929 1
Deletion Chr1 19688727 19688729 2 OsKitaake01g196000
Deletion Chr3 20052841 20052996 155
Deletion Chr6 20564524 20564534 10
Deletion Chr6 21954658 21954659 1
Deletion Chr5 23239191 23239201 10
Deletion Chr5 30211755 30211756 1
Deletion Chr2 33235848 33235856 8
Deletion Chr1 40156569 40156575 6

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 25759113 25759117 3
Insertion Chr9 8004353 8004357 3

Inversions: 6

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 4094114 4176195
Inversion Chr2 7350343 7583844 2
Inversion Chr2 7350687 7679619 OsKitaake02g100500
Inversion Chr2 7584070 7666802 OsKitaake02g099900
Inversion Chr1 33759873 34048605 OsKitaake01g350400
Inversion Chr1 33831528 34048604 2

Translocations: 7

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 6915778 Chr2 7350679 OsKitaake02g098100
Translocation Chr2 7350347 Chr1 25504216 OsKitaake02g098100
Translocation Chr2 7350595 Chr1 25504220 OsKitaake02g098100
Translocation Chr9 21920581 Chr4 26505278 OsKitaake04g190400
Translocation Chr9 22209709 Chr4 26505284 OsKitaake04g190400
Translocation Chr4 25617951 Chr2 7666795
Translocation Chr3 35516612 Chr1 33832025 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	23727003	G-A	Homo	INTERGENIC
SBS	Chr1	32694971	A-T	Homo	INTERGENIC
SBS	Chr1	42597663	C-T	Hetero	INTERGENIC
SBS	Chr2	17777239	G-A	Hetero	INTERGENIC
SBS	Chr2	30458717	A-T	Homo	SYNONYMOUS_CODING
SBS	Chr3	6872553	G-A	Hetero	INTERGENIC
SBS	Chr3	12967649	A-T	Hetero	INTRON
SBS	Chr3	27071850	G-A	Homo	INTERGENIC
SBS	Chr3	32010501	T-A	Homo	INTERGENIC
SBS	Chr3	37079661	T-A	Hetero	INTRON
SBS	Chr4	5010429	G-T	Hetero	INTERGENIC
SBS	Chr4	7539500	A-G	Homo	INTERGENIC
SBS	Chr4	31659425	G-A	Homo	UTR_3_PRIME
SBS	Chr4	31659426	C-A	Homo	UTR_3_PRIME
SBS	Chr5	3136458	A-T	Hetero	INTERGENIC
SBS	Chr5	27736468	C-T	Homo	INTRON
SBS	Chr5	27736469	G-A	Homo	INTRON
SBS	Chr6	10348527	G-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake06g117200
SBS	Chr6	10840802	C-A	Homo	INTERGENIC
SBS	Chr6	20327187	G-A	Homo	INTRON
SBS	Chr6	25415483	C-T	Hetero	INTERGENIC
SBS	Chr7	14317356	C-T	Hetero	INTRON
SBS	Chr7	14579696	G-A	Hetero	INTERGENIC
SBS	Chr7	15285859	T-A	Hetero	INTERGENIC
SBS	Chr8	509201	C-T	Hetero	INTERGENIC
SBS	Chr8	3249859	C-T	Hetero	INTERGENIC
SBS	Chr8	25977114	A-T	Hetero	INTERGENIC
SBS	Chr9	5484440	T-A	Homo	INTERGENIC
SBS	Chr9	10912260	A-T	Homo	INTERGENIC
SBS	Chr10	1019831	T-A	Hetero	INTERGENIC
SBS	Chr10	19567459	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr10	19580590	C-G	Homo	UTR_3_PRIME
SBS	Chr11	5396582	T-A	Homo	INTERGENIC
SBS	Chr11	11028395	C-G	Hetero	INTERGENIC
SBS	Chr11	16125326	C-A	Homo	INTERGENIC
SBS	Chr11	18997349	G-C	Homo	INTERGENIC
SBS	Chr11	26482651	G-A	Homo	INTERGENIC
SBS	Chr12	14743116	A-T	Homo	INTERGENIC
SBS	Chr12	15515046	A-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	26063	26415	352
Deletion	Chr3	52182	52184	2
Deletion	Chr11	2375977	2375979	2
Deletion	Chr11	9802937	9802938	1
Deletion	Chr9	19245928	19245929	1
Deletion	Chr1	19688727	19688729	2	OsKitaake01g196000
Deletion	Chr3	20052841	20052996	155
Deletion	Chr6	20564524	20564534	10
Deletion	Chr6	21954658	21954659	1
Deletion	Chr5	23239191	23239201	10
Deletion	Chr5	30211755	30211756	1
Deletion	Chr2	33235848	33235856	8
Deletion	Chr1	40156569	40156575	6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	4094114	4176195
Inversion	Chr2	7350343	7583844	2
Inversion	Chr2	7350687	7679619	OsKitaake02g100500
Inversion	Chr2	7584070	7666802	OsKitaake02g099900
Inversion	Chr1	33759873	34048605	OsKitaake01g350400
Inversion	Chr1	33831528	34048604	2

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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