Search Nipponbare

Mutant Information

Mutant Name	W706-3-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W706-3-1 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 36

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	16513116	C-A	HET	INTRON
SBS	Chr1	19897058	C-T	HET	INTRON
SBS	Chr1	21784575	C-T	HET	INTERGENIC
SBS	Chr1	2473638	C-T	HET	INTERGENIC
SBS	Chr1	30706488	G-T	HET	INTERGENIC
SBS	Chr1	3877972	C-A	HOMO	INTRON
SBS	Chr10	15468601	C-G	HOMO	INTERGENIC
SBS	Chr10	9280906	C-T	HET	INTERGENIC
SBS	Chr11	14233305	G-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g24990
SBS	Chr11	6006452	C-G	HOMO	INTERGENIC
SBS	Chr12	12062291	G-A	HET	INTERGENIC
SBS	Chr12	13811093	C-T	HOMO	INTERGENIC
SBS	Chr12	23975646	A-G	HOMO	INTERGENIC
SBS	Chr12	24618154	T-A	HOMO	INTERGENIC
SBS	Chr12	24618155	C-A	HOMO	INTERGENIC
SBS	Chr12	24618159	G-T	HOMO	INTERGENIC
SBS	Chr2	15825600	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g26940
SBS	Chr2	23658613	A-T	HOMO	INTRON
SBS	Chr2	3241371	C-T	HOMO	INTRON
SBS	Chr4	1574571	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g03600
SBS	Chr4	33866523	A-G	HOMO	INTERGENIC
SBS	Chr5	16548188	G-A	HET	INTERGENIC
SBS	Chr5	21322554	T-A	HOMO	INTERGENIC
SBS	Chr5	8664270	C-T	HET	INTERGENIC
SBS	Chr6	11145573	T-A	HOMO	INTERGENIC
SBS	Chr6	14855469	G-C	HET	INTERGENIC
SBS	Chr7	1874048	G-T	HOMO	INTRON
SBS	Chr7	23853253	T-C	HET	INTERGENIC
SBS	Chr7	23995263	T-G	HET	INTERGENIC
SBS	Chr7	24982855	C-A	HET	INTERGENIC
SBS	Chr7	8404042	C-T	HOMO	INTERGENIC
SBS	Chr8	19484300	G-T	HET	INTERGENIC
SBS	Chr8	5979375	C-T	HET	INTERGENIC
SBS	Chr8	8807498	C-T	HOMO	INTERGENIC
SBS	Chr9	3326572	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os09g06910
SBS	Chr9	5877426	C-T	HET	INTRON

Deletions: 25

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	2363633	2363645	12
Deletion	Chr5	2566697	2566724	27
Deletion	Chr3	2810583	2810584	1
Deletion	Chr9	4349164	4349165	1
Deletion	Chr12	9374041	9374042	1
Deletion	Chr8	9887246	9887247	1
Deletion	Chr3	10377974	10377975	1
Deletion	Chr12	12210101	12210104	3
Deletion	Chr3	12687370	12687374	4	LOC_Os03g22130
Deletion	Chr11	13064956	13064967	11
Deletion	Chr9	13865291	13865298	7
Deletion	Chr1	13923211	13923216	5
Deletion	Chr12	17655879	17655880	1
Deletion	Chr2	18445004	18446095	1091	LOC_Os02g30900
Deletion	Chr10	19192690	19192693	3
Deletion	Chr12	20929797	20929812	15
Deletion	Chr7	22315276	22315303	27
Deletion	Chr8	23910215	23910218	3
Deletion	Chr11	24287834	24287842	8
Deletion	Chr12	24716432	24716435	3	LOC_Os12g39980
Deletion	Chr7	24727772	24727776	4	LOC_Os07g41260
Deletion	Chr1	25538841	25538846	5	LOC_Os01g45010
Deletion	Chr11	25630828	25630833	5	LOC_Os11g42580
Deletion	Chr1	29274842	29274846	4
Deletion	Chr3	30542658	30542661	3

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	11739696	11739699	4
Insertion	Chr3	5152400	5152400	1

No Inversion

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	2944377	Chr3	24807549
Translocation	Chr11	2945167	Chr3	24807545
Translocation	Chr8	28178265	Chr2	18446079	2
Translocation	Chr8	28178294	Chr2	18445011	LOC_Os08g44860

Main menu