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Mutant Information

Mutant Name	FN2141-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2141-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Normal (Between 75% and 125%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000639 (Seed fertility) = Low (Between 25% and 74%) 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	11435978	C-G	HET
SBS	Chr1	14428308	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os01g25450
SBS	Chr1	19922714	C-T	HET
SBS	Chr1	32263217	G-A	HET
SBS	Chr1	40853364	A-T	Homo
SBS	Chr1	40853365	A-T	Homo
SBS	Chr1	43223824	C-T	HET
SBS	Chr1	5268788	G-A	HET
SBS	Chr1	5554806	A-G	HET
SBS	Chr1	9574202	C-T	HET
SBS	Chr10	15468601	C-G	Homo
SBS	Chr10	17662336	T-A	Homo
SBS	Chr10	18262907	A-T	Homo
SBS	Chr10	21675972	G-A	HET
SBS	Chr11	27672110	G-T	HET
SBS	Chr12	1654290	A-T	HET
SBS	Chr2	18911419	C-A	HET
SBS	Chr2	26304188	T-G	Homo
SBS	Chr2	5432616	G-A	HET
SBS	Chr3	31180971	G-C	HET
SBS	Chr4	10551583	C-T	Homo
SBS	Chr4	12645770	C-T	HET
SBS	Chr4	23624265	G-T	Homo
SBS	Chr5	17469388	C-T	Homo
SBS	Chr5	20151735	C-G	HET
SBS	Chr5	20557008	G-A	HET
SBS	Chr5	29722392	G-T	HET
SBS	Chr5	29722394	C-T	HET
SBS	Chr5	7815942	G-C	Homo
SBS	Chr6	10552241	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os06g18130
SBS	Chr6	11278754	A-T	HET
SBS	Chr6	11716828	G-C	HET
SBS	Chr6	22482817	G-T	HET
SBS	Chr7	14626561	G-T	Homo
SBS	Chr7	19044128	T-C	HET
SBS	Chr7	19156138	C-T	HET
SBS	Chr7	5545863	A-G	Homo
SBS	Chr8	23534273	A-C	Homo

Deletions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	3468571	3468578	7	LOC_Os04g06590
Deletion	Chr5	5023347	5023368	21
Deletion	Chr2	5876128	5876136	8
Deletion	Chr10	7621583	7621584	1
Deletion	Chr8	10993610	10993617	7	LOC_Os08g17920
Deletion	Chr11	14554001	14732000	177999	26
Deletion	Chr5	15192001	15473000	280999	54
Deletion	Chr1	15387203	15387212	9
Deletion	Chr11	28563459	28563460	1
Deletion	Chr5	28888001	29287000	398999	62
Deletion	Chr4	29112629	29112641	12	LOC_Os04g48800
Deletion	Chr3	29744273	29744274	1

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	15036274	15036274	1
Insertion	Chr12	27168226	27168229	4
Insertion	Chr12	3959845	3959846	2
Insertion	Chr2	23462455	23462455	1

Inversions: 89

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	124010	124257
Inversion	Chr11	193257	193643
Inversion	Chr7	510050	510204	LOC_Os07g01850
Inversion	Chr3	531252	531539
Inversion	Chr5	771881	772338
Inversion	Chr4	1444200	1444560	LOC_Os04g03360
Inversion	Chr8	1568444	1568759	LOC_Os08g03360
Inversion	Chr2	1580857	1581018
Inversion	Chr12	1848146	1848427
Inversion	Chr1	3188389	3188496
Inversion	Chr8	3281047	3281209	2
Inversion	Chr1	4319067	4319183
Inversion	Chr11	4337949	4338312
Inversion	Chr7	4849793	4849973
Inversion	Chr3	4898735	4898925
Inversion	Chr2	5263881	5264291	LOC_Os02g10100
Inversion	Chr10	6028899	6029318	2
Inversion	Chr1	6901825	6902079	LOC_Os01g12540
Inversion	Chr6	7354762	7545437
Inversion	Chr6	7354766	7545455
Inversion	Chr1	7586287	7586602
Inversion	Chr7	7742681	7742908
Inversion	Chr1	8120271	8120420	LOC_Os01g14490
Inversion	Chr3	8215452	8215632	LOC_Os03g15040
Inversion	Chr3	8343962	8344328	LOC_Os03g15250
Inversion	Chr1	8590015	8590122
Inversion	Chr5	8880114	8880215	LOC_Os05g15720
Inversion	Chr11	9308387	9308755
Inversion	Chr8	9337612	9337873
Inversion	Chr11	9415692	9416031
Inversion	Chr2	10014242	10014498
Inversion	Chr7	11089585	11089863
Inversion	Chr12	11264588	11264909	LOC_Os12g19381
Inversion	Chr2	11547663	11547763	LOC_Os02g19730
Inversion	Chr1	11611459	11611605	LOC_Os01g20830
Inversion	Chr3	11764321	11764574
Inversion	Chr4	13530031	13530468	LOC_Os04g23630
Inversion	Chr6	13546363	13546825
Inversion	Chr7	13653568	13654067	2
Inversion	Chr4	13725722	13726018	LOC_Os04g24020
Inversion	Chr12	13766638	13766875	LOC_Os12g24170
Inversion	Chr9	13812883	13813325
Inversion	Chr9	14030946	14031276	LOC_Os09g23620
Inversion	Chr3	14054789	14055065
Inversion	Chr1	14581344	14581609	LOC_Os01g25720
Inversion	Chr2	14674461	14674891
Inversion	Chr9	14800285	14800516
Inversion	Chr10	15163777	15164008
Inversion	Chr10	15366479	15366684	LOC_Os10g29560
Inversion	Chr9	15456783	15457132
Inversion	Chr6	15526509	15526834
Inversion	Chr8	15572037	15572178	LOC_Os08g25590
Inversion	Chr5	16355457	16355646
Inversion	Chr2	16368610	16368824
Inversion	Chr4	16607908	16608408
Inversion	Chr2	16897272	16897541
Inversion	Chr6	17882805	17883008
Inversion	Chr7	18316020	18316297
Inversion	Chr5	18741269	18741388	LOC_Os05g32140
Inversion	Chr11	18916075	18916482
Inversion	Chr12	19215177	19215465
Inversion	Chr7	19902213	19902655
Inversion	Chr2	20562876	20562988	LOC_Os02g34370
Inversion	Chr6	21379003	21379156	LOC_Os06g36410
Inversion	Chr11	22311359	22311609	LOC_Os11g37740
Inversion	Chr3	22450835	22451365
Inversion	Chr4	22558956	22559108	LOC_Os04g37930
Inversion	Chr7	22674037	22674395	LOC_Os07g37810
Inversion	Chr3	23435829	23436107
Inversion	Chr3	23471396	23471560
Inversion	Chr5	23869724	23870127
Inversion	Chr7	24592940	24593080	LOC_Os07g41090
Inversion	Chr1	24890939	24891198
Inversion	Chr7	25041639	25042026	LOC_Os07g41800
Inversion	Chr3	25113240	25113607
Inversion	Chr12	25554131	25554244	LOC_Os12g41210
Inversion	Chr4	25615062	25615321	LOC_Os04g43300
Inversion	Chr2	25787042	25787163
Inversion	Chr2	26003883	26004116
Inversion	Chr12	26503993	26504279	LOC_Os12g42640
Inversion	Chr5	26617877	26618230	LOC_Os05g45930
Inversion	Chr7	28048611	28048828
Inversion	Chr5	28628600	28629026	2
Inversion	Chr2	29023238	29023513	LOC_Os02g47500
Inversion	Chr4	31644068	31644206	LOC_Os04g53120
Inversion	Chr1	32477408	32477526	LOC_Os01g56360
Inversion	Chr3	33364979	33365109	LOC_Os03g58590
Inversion	Chr1	41928841	41929119	LOC_Os01g72320
Inversion	Chr1	43198231	43198459	LOC_Os01g74600

Translocations: 10

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	2960180	Chr2	11267534	2
Translocation	Chr12	6979954	Chr3	2404531	2
Translocation	Chr6	6999160	Chr1	11768862
Translocation	Chr9	9457326	Chr8	23929983	2
Translocation	Chr9	9871436	Chr8	23930248	2
Translocation	Chr7	12408453	Chr5	3022026
Translocation	Chr4	13906463	Chr3	34098102	LOC_Os04g24274
Translocation	Chr11	14273176	Chr4	22703805	LOC_Os11g25050
Translocation	Chr10	18166002	Chr5	28893595	2
Translocation	Chr10	18176684	Chr5	29288685	2

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