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Mutant Information

Mutant Name	FN1379-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1379-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) 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: 52

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	16831429	C-A	HET	INTERGENIC
SBS	Chr1	23078274	G-T	HET	INTRON
SBS	Chr1	23696551	C-T	HET	INTERGENIC
SBS	Chr1	7987320	C-T	HET	INTERGENIC
SBS	Chr10	13610698	A-G	HET	INTERGENIC
SBS	Chr10	18221691	A-G	HET	INTERGENIC
SBS	Chr11	13191982	T-C	HET	INTERGENIC
SBS	Chr12	10856436	A-C	HET	INTERGENIC
SBS	Chr12	13578179	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os12g23880
SBS	Chr12	15378508	T-C	HET	INTERGENIC
SBS	Chr12	461388	A-C	HET	INTERGENIC
SBS	Chr12	5109676	T-A	HET	INTRON
SBS	Chr12	7591899	C-T	Homo	INTERGENIC
SBS	Chr2	19445033	A-G	HET	INTRON
SBS	Chr3	12442289	T-A	Homo	INTRON
SBS	Chr3	19747713	T-C	Homo	INTRON
SBS	Chr3	22362433	A-T	Homo	INTERGENIC
SBS	Chr3	28013903	C-A	HET	INTERGENIC
SBS	Chr3	31897807	G-A	HET	INTERGENIC
SBS	Chr3	36148164	A-G	HET	INTERGENIC
SBS	Chr4	18361909	C-T	HET	SPLICE_SITE_REGION
SBS	Chr4	22094978	T-A	HET	INTERGENIC
SBS	Chr4	28483592	C-T	HET	INTERGENIC
SBS	Chr4	29712006	G-A	HET	INTRON
SBS	Chr4	33221060	T-C	HET	INTERGENIC
SBS	Chr4	5461058	A-T	HET	INTRON
SBS	Chr4	5461059	C-T	HET	INTRON
SBS	Chr4	8520812	C-T	Homo	INTERGENIC
SBS	Chr5	11831603	C-G	HET	INTERGENIC
SBS	Chr5	19878929	C-T	HET	SYNONYMOUS_CODING
SBS	Chr5	7407708	C-T	Homo	INTERGENIC
SBS	Chr6	12194303	G-A	HET	INTERGENIC
SBS	Chr6	12281400	A-G	HET	UTR_3_PRIME
SBS	Chr6	16401373	T-C	HET	INTRON
SBS	Chr6	25455641	G-A	HET	INTERGENIC
SBS	Chr7	12497096	T-C	HET	INTERGENIC
SBS	Chr7	14044458	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g24690
SBS	Chr7	17070887	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os07g29160
SBS	Chr7	17228502	T-C	HET	INTERGENIC
SBS	Chr7	27090740	T-C	Homo	NON_SYNONYMOUS_CODING	LOC_Os07g45410
SBS	Chr7	4900664	A-T	HET	INTERGENIC
SBS	Chr7	6025689	A-G	Homo	INTERGENIC
SBS	Chr7	7872830	C-A	HET	INTERGENIC
SBS	Chr8	10696815	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g17460
SBS	Chr8	10696816	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g17460
SBS	Chr8	11022296	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g17980
SBS	Chr8	11149381	G-A	HET	INTRON
SBS	Chr8	11588974	A-C	Homo	UTR_3_PRIME
SBS	Chr8	25211614	G-T	HET	INTRON
SBS	Chr8	25211625	G-T	HET	INTRON
SBS	Chr8	5627081	C-T	HET	INTERGENIC
SBS	Chr9	1254066	C-T	Homo	INTERGENIC

Deletions: 29

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	114332	114334	2
Deletion	Chr1	2527098	2527099	1
Deletion	Chr6	2598677	2598680	3
Deletion	Chr6	2755843	2755845	2
Deletion	Chr3	4336513	4336514	1
Deletion	Chr9	5416567	5416568	1
Deletion	Chr4	7477476	7477477	1
Deletion	Chr6	11197683	11197684	1
Deletion	Chr11	13771606	13771620	14
Deletion	Chr10	14849589	14849590	1
Deletion	Chr5	16351030	16351031	1
Deletion	Chr6	18234001	18688000	454000	73
Deletion	Chr4	20012972	20012973	1
Deletion	Chr9	20442720	20442722	2
Deletion	Chr9	20511150	20511157	7	LOC_Os09g35660
Deletion	Chr10	20611555	20611556	1
Deletion	Chr6	20956952	20956993	41
Deletion	Chr8	20969080	20969087	7
Deletion	Chr11	21378682	21378700	18
Deletion	Chr10	21385505	21385529	24
Deletion	Chr2	21803328	21803329	1
Deletion	Chr6	21831021	21831022	1
Deletion	Chr6	21992530	21992558	28	LOC_Os06g37224
Deletion	Chr1	26822652	26822660	8	LOC_Os01g46984
Deletion	Chr2	27289986	27290042	56
Deletion	Chr7	27847003	27847009	6	LOC_Os07g46610
Deletion	Chr4	31881381	31881383	2
Deletion	Chr3	33754256	33754264	8
Deletion	Chr1	40685071	40685074	3

Insertions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	19519264	19519267	4
Insertion	Chr1	21115852	21115852	1
Insertion	Chr1	878696	878697	2
Insertion	Chr10	5167946	5167947	2
Insertion	Chr3	14103551	14103552	2
Insertion	Chr4	8619258	8619258	1
Insertion	Chr5	10776599	10776602	4
Insertion	Chr5	11511193	11511193	1
Insertion	Chr5	17464032	17464033	2
Insertion	Chr7	23610120	23610121	2
Insertion	Chr8	24344729	24344729	1
Insertion	Chr8	2446407	2446407	1	LOC_Os08g04850

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	6806201	17449712	LOC_Os02g29380
Inversion	Chr2	6807058	17449698	LOC_Os02g29380
Inversion	Chr11	20119112	20178196
Inversion	Chr8	20460744	20767020	LOC_Os08g32970
Inversion	Chr8	20460755	21027999	2

No Translocation

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