Search Nipponbare

Mutant Information

Mutant Name	FN1249-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1249-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) 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: 20

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	22796569	T-C	HOMO	INTERGENIC
SBS	Chr10	11844930	T-A	HET	INTERGENIC
SBS	Chr11	16097507	C-T	HET	INTRON
SBS	Chr11	20080649	C-T	HET	INTERGENIC
SBS	Chr11	27210721	G-C	HET	INTERGENIC
SBS	Chr11	4544194	T-C	HET	INTRON
SBS	Chr12	5119846	C-T	HOMO	INTERGENIC
SBS	Chr12	7563072	A-G	HOMO	INTERGENIC
SBS	Chr3	22047798	C-T	HET	INTERGENIC
SBS	Chr3	26870665	T-G	HET	INTRON
SBS	Chr4	11370510	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g20320
SBS	Chr4	11370513	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g20320
SBS	Chr4	1617378	G-A	HET	INTERGENIC
SBS	Chr4	19723564	A-G	HET	INTERGENIC
SBS	Chr5	11728068	T-C	HET	INTERGENIC
SBS	Chr6	25116921	G-A	HET	INTERGENIC
SBS	Chr6	25116923	C-T	HET	INTERGENIC
SBS	Chr6	2710095	G-T	HOMO	INTERGENIC
SBS	Chr6	5180411	G-C	HOMO	SYNONYMOUS_CODING
SBS	Chr9	1740826	G-A	HET	SYNONYMOUS_CODING

Deletions: 26

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr7	59483	59493	10	LOC_Os07g01110
Deletion	Chr6	308125	308129	4	LOC_Os06g01500
Deletion	Chr1	1741892	1741895	3
Deletion	Chr11	2927870	2927884	14
Deletion	Chr11	4660064	4660065	1
Deletion	Chr4	4734132	4734135	3
Deletion	Chr12	5350614	5350615	1
Deletion	Chr4	8310653	8310654	1
Deletion	Chr6	9354001	9513000	159000	17
Deletion	Chr5	9933907	9933920	13	LOC_Os05g17330
Deletion	Chr5	10785465	10785466	1
Deletion	Chr4	11372367	11372371	4
Deletion	Chr9	15791054	15791068	14
Deletion	Chr12	21942499	21942504	5
Deletion	Chr6	23287298	23317441	30143	7
Deletion	Chr1	23406001	23406002	1
Deletion	Chr7	25805765	25805777	12
Deletion	Chr8	25907287	25907288	1
Deletion	Chr7	26318632	26318639	7
Deletion	Chr8	26831456	26831458	2
Deletion	Chr6	27378518	27378524	6
Deletion	Chr2	28184844	28184849	5
Deletion	Chr5	28666735	28666736	1	LOC_Os05g49980
Deletion	Chr2	30369652	30369657	5
Deletion	Chr4	31479001	31761000	282000	46
Deletion	Chr1	34963766	34963780	14

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr8	4591952	4591952	1
Insertion	Chr9	18899110	18899111	2

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	5504585	7108413
Inversion	Chr4	31479125	31806235	LOC_Os04g52860
Inversion	Chr4	31761089	31806243

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr6	23287315	Chr3	19926867
Translocation	Chr6	23317437	Chr3	19926864

Main menu