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Mutant Information

Mutant Name	FN2126-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2126-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 40

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	14238763	T-A	HET
SBS	Chr1	15254886	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os01g27330
SBS	Chr1	21804099	T-A	HET
SBS	Chr1	24292437	C-T	Homo
SBS	Chr1	27206905	T-A	HET
SBS	Chr1	27848673	G-A	HET
SBS	Chr1	34204876	T-A	HET
SBS	Chr1	7417708	G-T	Homo
SBS	Chr10	15469855	A-T	HET
SBS	Chr11	25650211	A-C	HET
SBS	Chr11	526378	T-A	HET
SBS	Chr12	17532608	A-G	Homo
SBS	Chr12	857305	C-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os12g02510
SBS	Chr12	9164999	C-A	HET
SBS	Chr2	1684045	C-A	HET
SBS	Chr2	20494889	C-G	HET
SBS	Chr3	21202392	G-A	HET
SBS	Chr3	30157618	C-T	Homo
SBS	Chr4	1884209	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g04080
SBS	Chr5	12804950	G-A	Homo
SBS	Chr5	1530099	G-A	HET
SBS	Chr5	23031833	A-T	Homo
SBS	Chr5	25832335	A-G	HET
SBS	Chr5	2972962	C-A	HET
SBS	Chr5	5041205	C-T	HET
SBS	Chr5	5605827	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os05g10270
SBS	Chr6	27800307	C-T	HET
SBS	Chr6	4140318	A-G	Homo
SBS	Chr7	12403177	C-T	Homo
SBS	Chr8	11907694	G-A	HET
SBS	Chr8	21019662	G-A	HET
SBS	Chr8	2127292	A-G	HET
SBS	Chr8	23700854	A-T	HET
SBS	Chr8	24826593	A-T	HET
SBS	Chr8	25831774	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g40830
SBS	Chr8	7186667	T-C	Homo
SBS	Chr9	11529612	A-T	HET
SBS	Chr9	11932394	C-T	HET
SBS	Chr9	20030077	A-G	Homo
SBS	Chr9	3997712	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os09g07860

Deletions: 21

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	126343	126345	2
Deletion	Chr7	387949	387950	1
Deletion	Chr2	1612770	1612772	2
Deletion	Chr12	2776036	2776045	9	LOC_Os12g06010
Deletion	Chr7	3268170	3268175	5
Deletion	Chr5	3677001	3745000	67999	10
Deletion	Chr5	3750001	3793000	42999	6
Deletion	Chr10	4091586	4091587	1	LOC_Os10g07562
Deletion	Chr8	4834770	4834790	20
Deletion	Chr10	8436001	8479000	42999	4
Deletion	Chr10	9660742	9660746	4
Deletion	Chr11	9912992	9913008	16
Deletion	Chr1	14089768	14089771	3
Deletion	Chr11	15496028	15496029	1
Deletion	Chr5	17421607	17421609	2
Deletion	Chr4	22447104	22447105	1
Deletion	Chr8	23371001	23403000	31999	5
Deletion	Chr7	26376265	26376266	1	LOC_Os07g44130
Deletion	Chr11	27475700	27475707	7
Deletion	Chr5	29892834	29892842	8
Deletion	Chr3	33849120	33849121	1	LOC_Os03g59470

Insertions: 7

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	25071308	25071311	4
Insertion	Chr5	1464349	1464350	2
Insertion	Chr5	3391997	3391998	2
Insertion	Chr5	9558181	9558183	3
Insertion	Chr6	5958988	5958989	2
Insertion	Chr7	21078742	21078743	2
Insertion	Chr8	27430859	27430860	2

Inversions: 87

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	146035	146381
Inversion	Chr4	982190	982296
Inversion	Chr6	1999901	2000128
Inversion	Chr8	2169041	2169434
Inversion	Chr8	2934957	2935210	LOC_Os08g05510
Inversion	Chr10	3711649	3711847
Inversion	Chr12	4180442	4180569	LOC_Os12g08180
Inversion	Chr1	4486129	4486367	LOC_Os01g08930
Inversion	Chr10	4509395	4509768
Inversion	Chr6	4915167	4915672
Inversion	Chr3	5256922	5257251	2
Inversion	Chr8	5580461	5580810	2
Inversion	Chr9	5847300	5847646	2
Inversion	Chr6	5883149	5883461
Inversion	Chr11	6231002	6231323
Inversion	Chr8	6252876	6253051
Inversion	Chr1	6858477	6858772	LOC_Os01g12490
Inversion	Chr7	8889576	8890037
Inversion	Chr6	9223083	9223355	LOC_Os06g16200
Inversion	Chr3	9312184	9312824	LOC_Os03g16790
Inversion	Chr8	10658890	10659042
Inversion	Chr5	11483670	11484074
Inversion	Chr3	11614849	11615062	LOC_Os03g20500
Inversion	Chr12	12087446	12087805	LOC_Os12g21500
Inversion	Chr4	12696177	12696451
Inversion	Chr3	12980505	12980743	LOC_Os03g22570
Inversion	Chr12	13205689	13205822
Inversion	Chr2	13364850	13365104
Inversion	Chr10	14065405	14065573
Inversion	Chr3	15024298	15024783
Inversion	Chr9	15473197	15473672
Inversion	Chr8	15691992	15692383
Inversion	Chr12	15784039	15784205
Inversion	Chr12	16114024	16114170
Inversion	Chr5	16152455	16152632	LOC_Os05g27730
Inversion	Chr4	16799778	16800012
Inversion	Chr4	16953648	16953851	LOC_Os04g28630
Inversion	Chr2	17513084	17513501	LOC_Os02g29480
Inversion	Chr9	17634497	17634753	LOC_Os09g29020
Inversion	Chr10	18054208	18054576	LOC_Os10g33940
Inversion	Chr2	18078509	18079056
Inversion	Chr9	18877775	18877970
Inversion	Chr5	19056705	19056981	LOC_Os05g32570
Inversion	Chr10	19326003	19326160
Inversion	Chr2	20185416	20185680	LOC_Os02g33860
Inversion	Chr1	20267373	20267587
Inversion	Chr2	20279427	20279608
Inversion	Chr6	20923439	20923913
Inversion	Chr6	20985790	20986175
Inversion	Chr1	21388886	21388995	LOC_Os01g38180
Inversion	Chr5	22107882	22108231	LOC_Os05g37760
Inversion	Chr10	22151993	22152427
Inversion	Chr2	22603357	22603655	LOC_Os02g37430
Inversion	Chr1	22661609	22662048	LOC_Os01g40170
Inversion	Chr2	22856495	22857039
Inversion	Chr2	22988426	22988565
Inversion	Chr3	23090547	23090691
Inversion	Chr2	23996563	23997146
Inversion	Chr6	24161840	24162367
Inversion	Chr8	24444769	24444949	LOC_Os08g38680
Inversion	Chr7	24632968	24633269	LOC_Os07g41160
Inversion	Chr8	25148160	25148396
Inversion	Chr12	25838373	25838736	2
Inversion	Chr4	25908628	25909025	LOC_Os04g43760
Inversion	Chr1	25931326	25931652	LOC_Os01g45659
Inversion	Chr11	26176752	26176973
Inversion	Chr7	26504818	26504980	LOC_Os07g44360
Inversion	Chr4	26528758	26529150	LOC_Os04g44810
Inversion	Chr5	27481894	27482038
Inversion	Chr2	27482545	27482675	LOC_Os02g45240
Inversion	Chr3	27716704	27717160	LOC_Os03g48610
Inversion	Chr11	28002596	28002876	LOC_Os11g46240
Inversion	Chr8	28010084	28010463	LOC_Os08g44540
Inversion	Chr6	28105971	28106108	LOC_Os06g46340
Inversion	Chr7	28427376	28427501	LOC_Os07g47530
Inversion	Chr4	29068985	29069256	LOC_Os04g48730
Inversion	Chr5	29550879	29551036	LOC_Os05g51530
Inversion	Chr2	29571970	29572218	LOC_Os02g48320
Inversion	Chr3	30515144	30515319	LOC_Os03g53190
Inversion	Chr3	30792550	30792732	LOC_Os03g53700
Inversion	Chr3	30901065	30901185	LOC_Os03g53890
Inversion	Chr1	33494176	33494554
Inversion	Chr1	33767569	33767839	LOC_Os01g58420
Inversion	Chr1	35073296	35073438	LOC_Os01g60660
Inversion	Chr1	35270845	35271092
Inversion	Chr1	36658762	36659140	LOC_Os01g63250
Inversion	Chr1	39899367	39899819

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	306590	Chr2	28271641	2
Translocation	Chr11	326433	Chr2	28270927	2
Translocation	Chr11	1118009	Chr1	8218341
Translocation	Chr7	15296483	Chr3	33356491
Translocation	Chr7	15297324	Chr3	33723705	2

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