Search Nipponbare

Mutant Information

Mutant Name	FN2171-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2171-S 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
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 30

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	25313521	G-A	HET
SBS	Chr10	20104975	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g37560
SBS	Chr10	20104976	G-T	HET
SBS	Chr10	5080239	T-C	Homo
SBS	Chr11	28873968	C-T	HET
SBS	Chr12	13306165	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os12g23520
SBS	Chr12	24539957	C-T	Homo
SBS	Chr12	8577216	G-T	HET
SBS	Chr12	8656831	A-G	HET
SBS	Chr2	20562323	G-A	HET
SBS	Chr2	22632544	C-A	HET
SBS	Chr2	23871954	C-A	HET
SBS	Chr2	24010380	C-T	HET
SBS	Chr2	25376639	A-C	HET
SBS	Chr2	26675645	C-T	HET
SBS	Chr2	32296089	A-G	HET
SBS	Chr3	11506542	G-A	HET
SBS	Chr3	2828938	A-C	HET
SBS	Chr3	29774418	C-T	HET
SBS	Chr4	9486611	T-C	Homo
SBS	Chr5	19134256	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os05g32680
SBS	Chr5	8755448	T-C	Homo
SBS	Chr7	14958608	C-T	Homo
SBS	Chr7	17301089	C-T	Homo
SBS	Chr8	1433231	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g03130
SBS	Chr8	25014820	G-A	HET
SBS	Chr8	3456889	G-T	Homo
SBS	Chr9	15809280	G-A	Homo
SBS	Chr9	20467117	A-T	HET
SBS	Chr9	21401682	C-T	HET

Deletions: 24

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr7	112525	112527	2
Deletion	Chr3	1596557	1596559	2
Deletion	Chr4	6596001	6682000	85999	12
Deletion	Chr11	7140227	7140266	39
Deletion	Chr8	7186845	7186848	3
Deletion	Chr4	9556726	9556728	2
Deletion	Chr7	10510352	10510354	2
Deletion	Chr10	13713315	13713320	5
Deletion	Chr7	14052385	14052386	1
Deletion	Chr1	14490412	14490414	2
Deletion	Chr11	14592669	14592670	1
Deletion	Chr9	15483489	15483496	7
Deletion	Chr2	15903581	15903587	6	LOC_Os02g27050
Deletion	Chr9	17228668	17228670	2
Deletion	Chr9	17333133	17333134	1
Deletion	Chr3	24139925	24139926	1
Deletion	Chr2	25512406	25512411	5	LOC_Os02g42406
Deletion	Chr4	25903345	25903347	2
Deletion	Chr6	26166238	26166240	2
Deletion	Chr3	27799147	27799148	1
Deletion	Chr3	28594364	28594371	7
Deletion	Chr4	30751417	30751418	1	LOC_Os04g51860
Deletion	Chr4	35396634	35396636	2
Deletion	Chr1	38637290	38637293	3

Insertions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	15713632	15713633	2
Insertion	Chr1	17515892	17515893	2
Insertion	Chr1	29012015	29012046	32
Insertion	Chr10	9807979	9807979	1
Insertion	Chr11	18798651	18798652	2	LOC_Os11g31970
Insertion	Chr11	6663889	6663889	1
Insertion	Chr3	17070255	17070255	1
Insertion	Chr3	21387216	21387216	1	LOC_Os03g38530
Insertion	Chr4	10895202	10895202	1
Insertion	Chr4	2685666	2685666	1
Insertion	Chr5	3849568	3849569	2
Insertion	Chr6	9622238	9622239	2

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	4762312	4762617	LOC_Os06g09420
Inversion	Chr3	5119152	5119409	LOC_Os03g10110
Inversion	Chr4	27853210	27985807	2
Inversion	Chr1	32974921	33157600	2
Inversion	Chr1	32974935	33157616	2

Translocations: 13

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	75061	Chr3	31735220
Translocation	Chr10	2296017	Chr4	15515607	2
Translocation	Chr12	2566083	Chr3	29943467	2
Translocation	Chr12	2566086	Chr4	6681500	2
Translocation	Chr6	4762314	Chr3	8876919	LOC_Os06g09420
Translocation	Chr6	4762322	Chr3	8876919	LOC_Os06g09420
Translocation	Chr6	4764878	Chr3	8879339
Translocation	Chr4	6596296	Chr3	29943883	2
Translocation	Chr12	6821819	Chr3	16273205	LOC_Os12g12390
Translocation	Chr11	19804795	Chr3	23443199	LOC_Os11g33450
Translocation	Chr8	20606597	Chr1	27980038
Translocation	Chr12	22729668	Chr1	24726876
Translocation	Chr4	32897645	Chr1	22814514

Main menu