Search Nipponbare

Mutant Information

Mutant Name	FN1509-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1509-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) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 42

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	14949943	A-T	HET	INTERGENIC
SBS	Chr1	17726438	T-G	HET	INTERGENIC
SBS	Chr1	17726440	T-C	HET	INTERGENIC
SBS	Chr1	19502369	C-T	HET	INTERGENIC
SBS	Chr1	23082046	G-A	HET	INTERGENIC
SBS	Chr10	16914303	T-C	HET	INTERGENIC
SBS	Chr10	20976818	G-A	HET	INTERGENIC
SBS	Chr11	14576522	C-T	HET	INTERGENIC
SBS	Chr11	18944388	A-C	Homo	INTERGENIC
SBS	Chr11	21695794	G-T	HET	INTERGENIC
SBS	Chr11	23086598	A-G	HET	INTERGENIC
SBS	Chr11	23453604	G-A	HET	INTERGENIC
SBS	Chr12	2186916	A-G	Homo	INTERGENIC
SBS	Chr12	25006584	G-A	HET	INTRON
SBS	Chr2	27172870	A-G	HET	INTERGENIC
SBS	Chr2	27468024	G-C	HET	INTERGENIC
SBS	Chr3	13117761	C-A	HET	INTERGENIC
SBS	Chr3	21569645	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os03g38840
SBS	Chr3	28890155	G-T	HET	INTERGENIC
SBS	Chr3	35941683	A-G	HET	INTERGENIC
SBS	Chr4	15501105	C-T	HET	INTERGENIC
SBS	Chr4	22021216	C-A	Homo	INTRON
SBS	Chr4	23601561	C-T	HET	INTERGENIC
SBS	Chr4	33067472	T-C	Homo	INTERGENIC
SBS	Chr4	33474184	T-G	HET	INTERGENIC
SBS	Chr4	7794476	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os04g13950
SBS	Chr4	8452501	T-A	HET	INTERGENIC
SBS	Chr5	12065409	C-T	HET	INTERGENIC
SBS	Chr5	14774511	C-T	HET	INTERGENIC
SBS	Chr5	21086966	C-T	HET	INTERGENIC
SBS	Chr6	12268819	T-C	HET	INTERGENIC
SBS	Chr6	14651113	C-T	HET	INTERGENIC
SBS	Chr6	14860784	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g25370
SBS	Chr6	26446900	T-A	Homo	INTERGENIC
SBS	Chr7	6820605	T-A	Homo	INTERGENIC
SBS	Chr8	17796380	A-G	HET	INTERGENIC
SBS	Chr8	18729777	C-T	HET	INTERGENIC
SBS	Chr8	5118763	C-G	HET	UTR_3_PRIME
SBS	Chr8	6399989	C-T	HET	INTRON
SBS	Chr9	11600778	G-A	HET	INTERGENIC
SBS	Chr9	3194949	C-T	HET	INTERGENIC
SBS	Chr9	5681261	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g10380

Deletions: 43

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	33975	46604	12629	2
Deletion	Chr7	597485	597486	1
Deletion	Chr7	953948	953950	2
Deletion	Chr5	1786665	1786674	9	LOC_Os05g03972
Deletion	Chr11	2891507	2891527	20
Deletion	Chr6	4456618	4456621	3
Deletion	Chr9	4555201	4555202	1
Deletion	Chr9	6345897	6345899	2
Deletion	Chr9	6793069	6793070	1
Deletion	Chr1	8307313	8307314	1
Deletion	Chr1	8538629	8538630	1
Deletion	Chr10	8735352	8735354	2
Deletion	Chr11	9027525	9027533	8
Deletion	Chr2	9031981	9031983	2
Deletion	Chr8	9224416	9224430	14	LOC_Os08g15230
Deletion	Chr4	11542059	11542062	3	LOC_Os04g20620
Deletion	Chr5	11946435	11948868	2433
Deletion	Chr6	12965264	12965265	1
Deletion	Chr4	13007643	13007644	1
Deletion	Chr4	13221356	13221371	15	LOC_Os04g23220
Deletion	Chr3	13445701	13445715	14
Deletion	Chr2	13662870	13663024	154
Deletion	Chr12	14377196	14377201	5
Deletion	Chr1	16110406	16110407	1
Deletion	Chr9	16324311	16324315	4
Deletion	Chr11	17018360	17018364	4
Deletion	Chr9	18195866	18207392	11526
Deletion	Chr5	20416168	20416172	4
Deletion	Chr2	21869040	21869041	1	LOC_Os02g36230
Deletion	Chr6	21992530	21992558	28	LOC_Os06g37224
Deletion	Chr2	22522669	22522677	8
Deletion	Chr1	22745240	22745241	1
Deletion	Chr11	22749454	22749462	8
Deletion	Chr11	24348487	24348500	13
Deletion	Chr2	25232844	25232859	15
Deletion	Chr2	25239950	25239953	3	LOC_Os02g42000
Deletion	Chr8	25257558	25257559	1
Deletion	Chr5	25536204	25536234	30
Deletion	Chr12	26972901	26972903	2
Deletion	Chr7	29651492	29651493	1
Deletion	Chr4	35028057	35028060	3	LOC_Os04g58880
Deletion	Chr3	35941581	35941585	4
Deletion	Chr1	38528548	38528549	1

Insertions: 26

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	1213455	1213463	9
Insertion	Chr1	12438573	12438573	1
Insertion	Chr10	18605247	18605306	60
Insertion	Chr10	22842543	22842543	1
Insertion	Chr11	11734176	11734178	3
Insertion	Chr12	21854734	21854747	14
Insertion	Chr12	24805688	24805688	1
Insertion	Chr2	19342067	19342072	6	LOC_Os02g32620
Insertion	Chr2	35086148	35086150	3	LOC_Os02g57270
Insertion	Chr2	4921513	4921515	3
Insertion	Chr3	12114390	12114391	2
Insertion	Chr3	21407829	21407829	1
Insertion	Chr4	18330057	18330068	12
Insertion	Chr4	29034416	29034425	10
Insertion	Chr4	7256904	7256943	40
Insertion	Chr5	18214181	18214186	6
Insertion	Chr6	16134818	16134854	37
Insertion	Chr6	20528618	20528631	14
Insertion	Chr6	24037839	24037842	4
Insertion	Chr7	21545780	21545781	2
Insertion	Chr7	25221115	25221116	2
Insertion	Chr8	14823122	14823122	1
Insertion	Chr8	25824153	25824154	2
Insertion	Chr8	8657538	8657538	1
Insertion	Chr9	10365411	10365470	60	LOC_Os09g16950
Insertion	Chr9	8981681	8981682	2

No Inversion

No Translocation

Main menu