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Mutant Information

Mutant Name	FN2279-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2279-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: 62

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	11129884	C-T	HET	STOP_GAINED	LOC_Os01g19630
SBS	Chr1	20256603	T-C	HET
SBS	Chr1	22051332	C-T	Homo
SBS	Chr1	23097603	A-C	Homo
SBS	Chr1	23097608	C-T	Homo
SBS	Chr1	26749343	C-T	HET
SBS	Chr1	34586345	G-A	HET
SBS	Chr10	13860456	A-T	Homo
SBS	Chr10	1395228	A-C	Homo
SBS	Chr10	16833793	A-C	HET
SBS	Chr10	20329618	T-C	HET
SBS	Chr10	5175766	C-G	HET
SBS	Chr11	17876829	C-T	HET
SBS	Chr11	18408479	G-A	HET
SBS	Chr11	18456697	T-G	HET
SBS	Chr11	217467	T-C	HET
SBS	Chr11	6303871	C-T	HET
SBS	Chr11	6303872	C-T	HET
SBS	Chr11	778173	C-T	Homo
SBS	Chr12	10976062	T-A	HET
SBS	Chr12	10986986	C-T	HET
SBS	Chr12	147021	C-T	Homo
SBS	Chr12	8928036	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os12g15630
SBS	Chr2	2585902	C-T	Homo
SBS	Chr2	2585903	G-T	Homo
SBS	Chr3	16309531	C-T	HET
SBS	Chr3	24425352	A-T	HET
SBS	Chr3	30215260	T-C	HET
SBS	Chr4	18422998	G-A	HET
SBS	Chr4	19938193	G-T	HET
SBS	Chr4	24825895	C-T	Homo
SBS	Chr4	27339915	A-G	HET
SBS	Chr5	12122345	C-T	Homo
SBS	Chr5	14041055	T-A	Homo
SBS	Chr5	20494055	C-T	HET
SBS	Chr5	21336043	T-C	Homo
SBS	Chr5	7611148	G-A	HET
SBS	Chr6	10103741	T-C	HET
SBS	Chr6	13234457	G-A	HET
SBS	Chr6	13416046	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os06g22980
SBS	Chr6	14988154	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g25640
SBS	Chr6	15736816	C-T	HET
SBS	Chr6	19717550	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g33890
SBS	Chr6	23166144	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g39020
SBS	Chr6	23166160	G-A	HET
SBS	Chr6	2719032	G-T	HET
SBS	Chr6	27465124	C-T	HET
SBS	Chr6	30822879	G-A	HET
SBS	Chr6	6959951	C-T	Homo
SBS	Chr7	11598160	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os07g19570
SBS	Chr7	19941630	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os07g33360
SBS	Chr7	24259100	T-C	Homo
SBS	Chr8	13609442	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g22620
SBS	Chr8	18808807	C-T	Homo
SBS	Chr8	19172575	C-T	HET
SBS	Chr8	20660875	G-T	HET
SBS	Chr8	26066163	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g41270
SBS	Chr8	3454627	A-T	Homo
SBS	Chr8	9191549	C-T	Homo
SBS	Chr9	17469763	G-A	Homo
SBS	Chr9	17469764	G-C	Homo
SBS	Chr9	21019259	C-T	Homo

Deletions: 27

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	844605	844613	8
Deletion	Chr8	1727982	1727987	5
Deletion	Chr2	2999868	2999881	13
Deletion	Chr6	4429682	4429683	1
Deletion	Chr1	6381555	6381566	11
Deletion	Chr7	6959001	6988000	28999	2
Deletion	Chr7	8388856	8388858	2
Deletion	Chr6	10419568	10419571	3
Deletion	Chr4	11579539	11579543	4
Deletion	Chr5	11725086	11725095	9
Deletion	Chr11	13231450	13231453	3
Deletion	Chr1	13277001	13283000	5999	LOC_Os01g23610
Deletion	Chr12	13628389	13628395	6
Deletion	Chr10	13882001	13891000	8999	LOC_Os10g26620
Deletion	Chr10	15484871	15484873	2
Deletion	Chr12	16357001	16384000	26999	6
Deletion	Chr9	18290035	18290036	1
Deletion	Chr5	19279454	19279455	1
Deletion	Chr9	20204810	20204814	4
Deletion	Chr2	20394886	20394892	6
Deletion	Chr8	20998792	20998809	17
Deletion	Chr11	22342001	22393000	50999	4
Deletion	Chr6	23150806	23150807	1
Deletion	Chr11	25727919	25727922	3	LOC_Os11g42710
Deletion	Chr1	31854812	31854814	2
Deletion	Chr3	32731431	32731432	1	LOC_Os03g57390
Deletion	Chr3	34948540	34948544	4	LOC_Os03g61660

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	24126767	24126768	2
Insertion	Chr1	37140758	37140758	1
Insertion	Chr3	14316094	14316095	2
Insertion	Chr8	25361005	25361005	1	LOC_Os08g40050
Insertion	Chr8	2871634	2871635	2
Insertion	Chr8	3347906	3347907	2

Inversions: 7

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	107957	284982	2
Inversion	Chr2	109776	284983	2
Inversion	Chr7	10486765	11372466	2
Inversion	Chr7	10486767	11372468	2
Inversion	Chr5	15329665	15829347
Inversion	Chr4	17054916	17168566
Inversion	Chr4	17054922	17168574

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	4295588	Chr7	7885934	LOC_Os12g08450
Translocation	Chr12	4435112	Chr7	7875864	2
Translocation	Chr6	9794993	Chr4	17545681	2
Translocation	Chr11	10912014	Chr8	4491757	2
Translocation	Chr11	10912037	Chr8	4465398	LOC_Os11g19130

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