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Mutant Information

Mutant Name	N1-169-4 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download N1-169-4 Alignment File
Seed Availability	No
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 34

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	20476104	C-G	Hetero	INTERGENIC
SBS	Chr1	23727003	G-A	Hetero	INTERGENIC
SBS	Chr1	32694971	A-T	Homo	INTERGENIC
SBS	Chr1	39444634	C-T	Hetero	INTERGENIC
SBS	Chr1	42597663	C-T	Homo	INTERGENIC
SBS	Chr2	26727668	C-T	Hetero	INTERGENIC
SBS	Chr2	30458717	A-T	Homo	SYNONYMOUS_CODING
SBS	Chr2	31552714	G-A	Hetero	INTERGENIC
SBS	Chr3	32010501	T-A	Homo	INTERGENIC
SBS	Chr3	37547438	C-T	Hetero	INTERGENIC
SBS	Chr4	7539500	A-G	Homo	INTERGENIC
SBS	Chr4	17012507	A-C	Homo	INTERGENIC
SBS	Chr4	31659425	G-A	Homo	UTR_3_PRIME
SBS	Chr4	31659426	C-A	Homo	UTR_3_PRIME
SBS	Chr5	11454918	G-A	Hetero	INTERGENIC
SBS	Chr5	27736468	C-T	Homo	INTRON
SBS	Chr5	27736469	G-A	Homo	INTRON
SBS	Chr6	10840802	C-A	Hetero	INTERGENIC
SBS	Chr6	12955525	T-A	Homo	INTERGENIC
SBS	Chr6	20327187	G-A	Homo	INTRON
SBS	Chr6	24636282	C-T	Hetero	INTERGENIC
SBS	Chr7	14317356	C-T	Hetero	INTRON
SBS	Chr7	19382063	C-A	Hetero	INTERGENIC
SBS	Chr8	25977114	A-T	Homo	INTERGENIC
SBS	Chr9	5484440	T-A	Homo	INTERGENIC
SBS	Chr9	10912260	A-T	Homo	INTERGENIC
SBS	Chr10	5336431	C-T	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	26482651	G-A	Homo	INTERGENIC
SBS	Chr12	11827347	A-T	Hetero	INTERGENIC
SBS	Chr12	12268576	T-A	Hetero	INTERGENIC
SBS	Chr12	15515046	A-T	Hetero	INTERGENIC

Deletions: 15

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr12	4269706	4269708	2
Deletion	Chr7	8165312	8165403	91	OsKitaake07g089300
Deletion	Chr9	8575998	8576000	2
Deletion	Chr2	10417263	10417265	2
Deletion	Chr1	17199878	17200043	165
Deletion	Chr6	19166727	19166729	2	OsKitaake06g173100
Deletion	Chr6	20564524	20564534	10
Deletion	Chr4	20921387	20921394	7	OsKitaake04g114300
Deletion	Chr6	21954658	21954659	1
Deletion	Chr1	24535431	24535432	1
Deletion	Chr5	25759113	25759115	2
Deletion	Chr7	26080246	26080247	1
Deletion	Chr1	29511223	29511495	272
Deletion	Chr3	29587117	29587118	1
Deletion	Chr3	35518001	35525000	6999

Insertions: 2

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Insertion	Chr7	12045873	12045875	1
Insertion	Chr8	13431372	13431374	1

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	4094114	4176195
Inversion	Chr1	33759873	34048605	OsKitaake01g350400
Inversion	Chr1	33831528	34048604	2

Translocations: 5

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