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Mutant Information

Mutant Name	FN1582-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1582-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000346 (Tiller number) = High (Between 126% and 175%) 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: 38

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	2905956	C-T	HET	INTERGENIC
SBS	Chr1	34685373	C-A	Homo	UTR_3_PRIME
SBS	Chr1	41888232	T-C	Homo	INTRON
SBS	Chr1	41911113	G-A	Homo	INTERGENIC
SBS	Chr2	22955336	C-A	HET	INTERGENIC
SBS	Chr3	3182862	A-T	HET	INTERGENIC
SBS	Chr3	18057435	C-A	HET	INTERGENIC
SBS	Chr3	20636239	T-C	HET	INTERGENIC
SBS	Chr4	13565278	C-T	HET	INTERGENIC
SBS	Chr4	18237422	C-T	Homo	INTERGENIC
SBS	Chr4	18237428	T-C	Homo	INTERGENIC
SBS	Chr4	24012802	G-A	Homo	INTERGENIC
SBS	Chr4	28592517	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g48050
SBS	Chr4	31255617	A-T	HET	INTRON
SBS	Chr5	2945821	C-A	HET	INTERGENIC
SBS	Chr5	14674614	A-G	HET	INTERGENIC
SBS	Chr5	16890864	A-T	Homo	INTRON
SBS	Chr6	2540280	T-A	Homo	INTERGENIC
SBS	Chr6	2917498	G-C	HET	INTERGENIC
SBS	Chr6	4163578	G-A	HET	INTRON
SBS	Chr6	20455286	G-T	HET	STOP_GAINED	LOC_Os06g35140
SBS	Chr7	15452983	G-T	Homo	INTERGENIC
SBS	Chr7	23767125	G-A	HET	INTRON
SBS	Chr8	2422828	G-A	HET	INTERGENIC
SBS	Chr8	3989663	G-A	HET	INTERGENIC
SBS	Chr8	18249104	C-T	HET	UTR_3_PRIME
SBS	Chr9	13555217	C-T	HET	SYNONYMOUS_CODING
SBS	Chr10	11543084	C-T	HET	INTERGENIC
SBS	Chr10	15485623	A-G	HET	INTERGENIC
SBS	Chr10	15607017	C-T	HET	INTRON
SBS	Chr10	16021815	A-C	HET	INTRON
SBS	Chr10	17103332	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g32649
SBS	Chr11	6431256	A-G	HET	INTERGENIC
SBS	Chr11	7500363	G-A	HET	INTERGENIC
SBS	Chr11	9674140	G-A	HET	INTERGENIC
SBS	Chr11	9776742	C-T	HET	UTR_3_PRIME
SBS	Chr11	9776743	C-T	HET	UTR_3_PRIME
SBS	Chr12	20130429	C-T	HET	INTRON

Deletions: 40

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	701983	718641	16658	4
Deletion	Chr12	1323993	1324002	9	LOC_Os12g03410
Deletion	Chr5	2919532	2919533	1
Deletion	Chr5	3158444	3158454	10
Deletion	Chr3	3323518	3323519	1	LOC_Os03g06610
Deletion	Chr5	4495621	4495622	1
Deletion	Chr10	5714379	5714381	2	LOC_Os10g10400
Deletion	Chr11	6812669	6812707	38	LOC_Os11g12210
Deletion	Chr4	6961001	6996000	35000	5
Deletion	Chr3	8662808	8662817	9	LOC_Os03g15700
Deletion	Chr12	10454864	10454865	1
Deletion	Chr11	11705485	11705494	9	LOC_Os11g20239
Deletion	Chr7	12478322	12478324	2
Deletion	Chr12	12892953	12892956	3	LOC_Os12g22839
Deletion	Chr11	13740768	13740770	2
Deletion	Chr8	14290468	14290477	9
Deletion	Chr12	14308950	14308951	1
Deletion	Chr3	17477755	17477792	37	LOC_Os03g30660
Deletion	Chr3	17591944	17591953	9
Deletion	Chr5	17829070	17829071	1
Deletion	Chr11	19525863	19525864	1
Deletion	Chr6	20108934	20125267	16333	4
Deletion	Chr12	20753925	20753926	1	LOC_Os12g34230
Deletion	Chr1	20828342	20828354	12	LOC_Os01g37310
Deletion	Chr10	21404312	21404314	2
Deletion	Chr4	23541906	23541909	3
Deletion	Chr12	23964397	23964400	3
Deletion	Chr12	24139232	24139233	1
Deletion	Chr7	24445852	24445854	2
Deletion	Chr1	24736871	24736875	4
Deletion	Chr3	24779693	24779700	7
Deletion	Chr6	25181895	25181896	1
Deletion	Chr12	26298022	26298023	1
Deletion	Chr4	27569533	27569535	2
Deletion	Chr3	28680855	28680856	1
Deletion	Chr3	29610598	29610611	13
Deletion	Chr4	33828361	33828362	1	LOC_Os04g56720
Deletion	Chr2	33957497	33957501	4	LOC_Os02g55440
Deletion	Chr1	34682272	34682286	14
Deletion	Chr1	38991092	38991093	1	LOC_Os01g67180

Insertions: 13

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	4354515	4354534	20
Insertion	Chr1	39516444	39516444	1
Insertion	Chr2	12273509	12273509	1
Insertion	Chr2	16056395	16056408	14
Insertion	Chr3	16145165	16145169	5
Insertion	Chr5	12480	12480	1
Insertion	Chr6	8170059	8170059	1
Insertion	Chr6	10823902	10823907	6
Insertion	Chr6	27130855	27130855	1
Insertion	Chr7	20874214	20874214	1
Insertion	Chr8	151810	151811	2
Insertion	Chr11	1789739	1789756	18
Insertion	Chr11	25044555	25044558	4

Inversions: 6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	273160	436057	LOC_Os05g01470
Inversion	Chr5	1957770	2200396
Inversion	Chr5	2181843	2200584	LOC_Os05g04640
Inversion	Chr2	9301574	9374480	LOC_Os02g16430
Inversion	Chr12	19931456	20147609	LOC_Os12g32992
Inversion	Chr12	19932072	20147619	LOC_Os12g32992

No Translocation

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr6	19962385	19990541	28156	3

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