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Mutant Information

Mutant Name	N1-169-8 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download N1-169-8 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Very Low (Below 24%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 36

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 3506715 T-A Hetero INTERGENIC
SBS Chr1 15352309 C-G Homo INTERGENIC
SBS Chr1 20476104 C-G Homo INTERGENIC
SBS Chr1 23727003 G-A Homo INTERGENIC
SBS Chr1 32694971 A-T Homo INTERGENIC
SBS Chr2 30458717 A-T Homo SYNONYMOUS_CODING
SBS Chr3 12967649 A-T Homo INTRON
SBS Chr3 27071850 G-A Hetero INTERGENIC
SBS Chr3 32010501 T-A Homo INTERGENIC
SBS Chr3 36367643 C-T Hetero INTRON
SBS Chr4 5010429 G-T Hetero INTERGENIC
SBS Chr4 7539500 A-G Homo INTERGENIC
SBS Chr4 9541538 C-T Hetero INTERGENIC
SBS Chr4 17012507 A-C Hetero INTERGENIC
SBS Chr4 31659425 G-A Homo UTR_3_PRIME
SBS Chr4 31659426 C-A Homo UTR_3_PRIME
SBS Chr5 11454918 G-A Homo INTERGENIC
SBS Chr5 15669324 C-T Hetero UTR_3_PRIME
SBS Chr5 27736468 C-T Homo INTRON
SBS Chr5 27736469 G-A Homo INTRON
SBS Chr6 10348527 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake06g117200
SBS Chr6 10840802 C-A Hetero INTERGENIC
SBS Chr6 12955525 T-A Hetero INTERGENIC
SBS Chr6 20327187 G-A Homo INTRON
SBS Chr7 14579696 G-A Hetero INTERGENIC
SBS Chr8 509201 C-T Homo INTERGENIC
SBS Chr8 25894459 A-T Homo INTERGENIC
SBS Chr9 5484440 T-A Homo 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 16125326 C-A Hetero INTERGENIC
SBS Chr11 26482651 G-A Homo INTERGENIC
SBS Chr12 12268576 T-A Hetero INTERGENIC
SBS Chr12 15515046 A-T Hetero INTERGENIC
SBS Chr12 20185679 G-C Hetero INTERGENIC

Deletions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 2744768 2744769 1
Deletion Chr3 3731098 3731099 1
Deletion Chr8 9043235 9043319 84
Deletion Chr10 9983862 9983863 1
Deletion Chr5 10304566 10304567 1
Deletion Chr12 15312620 15312711 91
Deletion Chr5 16743591 16743682 91
Deletion Chr12 21253306 21253416 110
Deletion Chr6 21954658 21954659 1
Deletion Chr5 25759113 25759115 2
Deletion Chr3 35517001 35526000 8999

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 1061702 1061705 2
Insertion Chr7 17400373 17400376 2
Insertion Chr6 26794 26796 1
Insertion Chr6 31040491 31040526 34

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 4094114 4176213
Inversion Chr2 30918426 30925767
Inversion Chr1 33759873 34048605 OsKitaake01g350400
Inversion Chr1 33831528 34048604 2

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 6302552 Chr5 4771274
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 22209706 Chr4 26505284 OsKitaake04g190400

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3506715	T-A	Hetero	INTERGENIC
SBS	Chr1	15352309	C-G	Homo	INTERGENIC
SBS	Chr1	20476104	C-G	Homo	INTERGENIC
SBS	Chr1	23727003	G-A	Homo	INTERGENIC
SBS	Chr1	32694971	A-T	Homo	INTERGENIC
SBS	Chr2	30458717	A-T	Homo	SYNONYMOUS_CODING
SBS	Chr3	12967649	A-T	Homo	INTRON
SBS	Chr3	27071850	G-A	Hetero	INTERGENIC
SBS	Chr3	32010501	T-A	Homo	INTERGENIC
SBS	Chr3	36367643	C-T	Hetero	INTRON
SBS	Chr4	5010429	G-T	Hetero	INTERGENIC
SBS	Chr4	7539500	A-G	Homo	INTERGENIC
SBS	Chr4	9541538	C-T	Hetero	INTERGENIC
SBS	Chr4	17012507	A-C	Hetero	INTERGENIC
SBS	Chr4	31659425	G-A	Homo	UTR_3_PRIME
SBS	Chr4	31659426	C-A	Homo	UTR_3_PRIME
SBS	Chr5	11454918	G-A	Homo	INTERGENIC
SBS	Chr5	15669324	C-T	Hetero	UTR_3_PRIME
SBS	Chr5	27736468	C-T	Homo	INTRON
SBS	Chr5	27736469	G-A	Homo	INTRON
SBS	Chr6	10348527	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g117200
SBS	Chr6	10840802	C-A	Hetero	INTERGENIC
SBS	Chr6	12955525	T-A	Hetero	INTERGENIC
SBS	Chr6	20327187	G-A	Homo	INTRON
SBS	Chr7	14579696	G-A	Hetero	INTERGENIC
SBS	Chr8	509201	C-T	Homo	INTERGENIC
SBS	Chr8	25894459	A-T	Homo	INTERGENIC
SBS	Chr9	5484440	T-A	Homo	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	16125326	C-A	Hetero	INTERGENIC
SBS	Chr11	26482651	G-A	Homo	INTERGENIC
SBS	Chr12	12268576	T-A	Hetero	INTERGENIC
SBS	Chr12	15515046	A-T	Hetero	INTERGENIC
SBS	Chr12	20185679	G-C	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	2744768	2744769	1
Deletion	Chr3	3731098	3731099	1
Deletion	Chr8	9043235	9043319	84
Deletion	Chr10	9983862	9983863	1
Deletion	Chr5	10304566	10304567	1
Deletion	Chr12	15312620	15312711	91
Deletion	Chr5	16743591	16743682	91
Deletion	Chr12	21253306	21253416	110
Deletion	Chr6	21954658	21954659	1
Deletion	Chr5	25759113	25759115	2
Deletion	Chr3	35517001	35526000	8999

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	4094114	4176213
Inversion	Chr2	30918426	30925767
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