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Mutant Information

Mutant Name	FN1344-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1344-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) = Low (Between 25% and 74%) 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: 33

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13893440	A-C	HET	INTERGENIC
SBS	Chr1	14094773	T-A	HET	INTERGENIC
SBS	Chr1	14094774	T-A	HET	INTERGENIC
SBS	Chr1	20592598	C-T	HET	INTERGENIC
SBS	Chr1	28962461	C-T	HOMO	INTERGENIC
SBS	Chr10	15130594	C-A	HOMO	INTERGENIC
SBS	Chr10	4829318	G-A	HOMO	INTRON
SBS	Chr11	13497858	C-T	HOMO	INTRON
SBS	Chr12	15332902	C-T	HET	INTRON
SBS	Chr12	2776623	T-C	HET	INTRON
SBS	Chr12	5761717	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os12g10730
SBS	Chr2	14310782	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g24670
SBS	Chr2	33542731	A-C	HET	SPLICE_SITE_REGION
SBS	Chr3	17169068	C-G	HOMO	INTERGENIC
SBS	Chr3	18699629	G-C	HET	INTERGENIC
SBS	Chr3	20455478	C-T	HET	INTERGENIC
SBS	Chr3	3953204	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g07780
SBS	Chr3	7630567	G-A	HOMO	INTERGENIC
SBS	Chr4	14547660	G-A	HOMO	INTERGENIC
SBS	Chr4	27070072	C-T	HET	INTERGENIC
SBS	Chr4	6607918	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g12040
SBS	Chr5	16243362	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os05g27860
SBS	Chr5	3579783	C-T	HOMO	INTERGENIC
SBS	Chr5	8882143	G-T	HET	INTRON
SBS	Chr6	4417217	C-T	HET	INTERGENIC
SBS	Chr6	9190776	C-T	HET	INTERGENIC
SBS	Chr7	19681313	G-T	HET	INTERGENIC
SBS	Chr7	7654026	G-A	HET	SYNONYMOUS_CODING
SBS	Chr8	27749671	A-T	HET	INTERGENIC
SBS	Chr9	18938461	T-A	HOMO	SPLICE_SITE_REGION
SBS	Chr9	2898033	G-C	HET	INTRON
SBS	Chr9	8604140	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os09g14540
SBS	Chr9	8604141	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g14540

Deletions: 27

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr9	287168	287169	1
Deletion	Chr6	942675	942686	11
Deletion	Chr6	967437	967444	7	LOC_Os06g02700
Deletion	Chr12	2828310	2828318	8
Deletion	Chr2	4526405	4526421	16
Deletion	Chr10	5962608	5963169	561
Deletion	Chr1	7374745	7374993	248
Deletion	Chr2	8038438	8038439	1
Deletion	Chr2	8280381	8280387	6
Deletion	Chr8	8617491	8617501	10	LOC_Os08g14364
Deletion	Chr12	9179792	9179793	1	LOC_Os12g16080
Deletion	Chr12	9501178	9501181	3
Deletion	Chr3	10970442	10970443	1
Deletion	Chr12	11826805	11826852	47
Deletion	Chr12	13349197	13349216	19
Deletion	Chr3	13413549	13413550	1
Deletion	Chr3	14922307	14922308	1	LOC_Os03g26030
Deletion	Chr9	17732420	17732422	2	LOC_Os09g29160
Deletion	Chr6	20819562	20819566	4
Deletion	Chr9	21184594	21184600	6
Deletion	Chr5	22163630	22163631	1
Deletion	Chr3	22556378	22556379	1
Deletion	Chr4	23579832	23579838	6	LOC_Os04g39570
Deletion	Chr4	26927639	26930380	2741
Deletion	Chr8	27625588	27625590	2
Deletion	Chr4	35096487	35096508	21
Deletion	Chr1	41375337	41375341	4	LOC_Os01g71410

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	24016098	24016099	2
Insertion	Chr11	4888209	4888210	2
Insertion	Chr12	20273415	20273416	2
Insertion	Chr12	2892918	2892921	4
Insertion	Chr2	10063174	10063177	4
Insertion	Chr5	27107306	27107306	1

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	2010399	3957605	2
Inversion	Chr12	2711895	2715133	LOC_Os12g05900
Inversion	Chr12	5517220	5765055
Inversion	Chr1	29794961	37075544	LOC_Os01g51820

Translocations: 7

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	2127588	Chr1	37075557
Translocation	Chr11	2127760	Chr1	29794970	LOC_Os01g51820
Translocation	Chr12	5765054	Chr6	29546362
Translocation	Chr12	5765327	Chr6	29546356
Translocation	Chr10	5962610	Chr3	25741964
Translocation	Chr10	5963212	Chr3	25742005
Translocation	Chr8	27702792	Chr6	24365551	LOC_Os06g40850

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