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Mutant Information

Mutant Name	FN2179-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2179-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: 29

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr10	11743659	C-A	HET
SBS	Chr10	1349663	T-G	Homo
SBS	Chr11	13172846	C-T	HET
SBS	Chr11	15059709	C-T	HET
SBS	Chr11	27382709	C-T	HET
SBS	Chr12	15367884	C-G	HET	SPLICE_SITE_ACCEPTOR	LOC_Os12g26320
SBS	Chr12	839836	G-A	HET
SBS	Chr12	8412571	T-A	HET
SBS	Chr2	16871128	C-T	HET
SBS	Chr2	17430126	G-A	HET
SBS	Chr2	4831052	T-A	Homo
SBS	Chr3	14230666	C-T	HET
SBS	Chr4	10292766	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g18610
SBS	Chr4	13951889	A-G	HET
SBS	Chr4	15147612	G-T	HET
SBS	Chr4	21154433	G-A	HET
SBS	Chr4	26444890	T-A	HET
SBS	Chr5	20998166	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os05g35360
SBS	Chr5	26505316	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g45760
SBS	Chr6	16429187	T-C	HET
SBS	Chr6	4117942	G-T	Homo
SBS	Chr7	28706966	T-A	Homo
SBS	Chr7	7286190	G-A	HET
SBS	Chr7	8716231	A-G	Homo
SBS	Chr8	1076922	C-T	Homo
SBS	Chr8	10856226	C-A	HET
SBS	Chr8	922232	A-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g02350
SBS	Chr9	17016293	A-G	Homo
SBS	Chr9	19636479	G-A	Homo

Deletions: 11

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	3453481	3453484	3
Deletion	Chr12	4457146	4457147	1
Deletion	Chr9	4753131	4753204	73
Deletion	Chr8	11742064	11742065	1
Deletion	Chr12	12005807	12005808	1
Deletion	Chr2	18483058	18483059	1
Deletion	Chr9	21343803	21343807	4
Deletion	Chr5	21391001	21658000	266999	52
Deletion	Chr1	21676902	21676907	5
Deletion	Chr12	25735822	25735823	1
Deletion	Chr1	31900123	31900125	2

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	16883267	16883267	1
Insertion	Chr11	7920239	7920240	2
Insertion	Chr2	13710263	13710265	3	LOC_Os02g23820
Insertion	Chr3	11315495	11315495	1	LOC_Os03g20080
Insertion	Chr5	21998763	21998763	1
Insertion	Chr9	2823796	2823796	1

Inversions: 10

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	4057488	4089228	2
Inversion	Chr2	8363255	9158257	2
Inversion	Chr3	15637380	15931345
Inversion	Chr11	18363707	18463502	LOC_Os11g31430
Inversion	Chr2	18372605	18372978	LOC_Os02g30810
Inversion	Chr7	18733081	18901035	2
Inversion	Chr7	18733089	18901038	2
Inversion	Chr5	21200847	21391871	2
Inversion	Chr5	21350780	21712397	2
Inversion	Chr7	23049310	23049720	2

Translocations: 17

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr4	963985	Chr3	31563999
Translocation	Chr7	1481231	Chr1	3304663
Translocation	Chr11	2304130	Chr3	18691207	2
Translocation	Chr7	2407609	Chr1	30657813	2
Translocation	Chr12	6099714	Chr1	19169878	2
Translocation	Chr9	7499428	Chr6	18640340
Translocation	Chr8	8051990	Chr1	23474030	2
Translocation	Chr10	13345323	Chr2	16714300
Translocation	Chr6	14495684	Chr3	15931353	LOC_Os06g24690
Translocation	Chr6	14496670	Chr3	15637389	LOC_Os06g24690
Translocation	Chr6	14497248	Chr1	3978695	2
Translocation	Chr6	15986283	Chr4	29378165
Translocation	Chr5	16247991	Chr1	3244571
Translocation	Chr11	19843682	Chr1	1322432	LOC_Os11g33938
Translocation	Chr11	22995419	Chr7	21960411
Translocation	Chr11	25301712	Chr1	2386677	2
Translocation	Chr6	25585976	Chr5	666474

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