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Mutant Information

Mutant Name	FN1543-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1543-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal 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: 30

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15661407	G-A	HET	INTERGENIC
SBS	Chr2	18443800	C-G	Homo	INTERGENIC
SBS	Chr2	21193717	G-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os02g35270
SBS	Chr2	23314978	T-C	HET	SYNONYMOUS_CODING
SBS	Chr2	23314992	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g38570
SBS	Chr2	23314999	A-G	HET	SYNONYMOUS_CODING
SBS	Chr2	26328983	C-T	Homo	INTERGENIC
SBS	Chr3	1067622	T-A	HET	INTERGENIC
SBS	Chr3	5228467	A-T	HET	INTERGENIC
SBS	Chr3	9892311	T-C	Homo	INTERGENIC
SBS	Chr3	20454272	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g36860
SBS	Chr4	22211407	A-G	Homo	INTERGENIC
SBS	Chr5	28254699	C-A	HET	INTRON
SBS	Chr6	11623313	C-A	Homo	INTERGENIC
SBS	Chr6	18839549	T-G	HET	INTERGENIC
SBS	Chr6	23594063	C-T	HET	INTERGENIC
SBS	Chr7	24214188	A-T	Homo	INTERGENIC
SBS	Chr8	3076436	A-G	HET	INTERGENIC
SBS	Chr8	16370885	G-A	HET	INTERGENIC
SBS	Chr8	21663798	T-C	HET	INTERGENIC
SBS	Chr8	24261452	G-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g38300
SBS	Chr8	24261455	G-T	Homo	SYNONYMOUS_CODING
SBS	Chr8	26123356	C-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g41340
SBS	Chr9	19009293	C-A	Homo	INTERGENIC
SBS	Chr10	2895590	G-A	Homo	INTRON
SBS	Chr10	3777831	A-T	Homo	SYNONYMOUS_CODING
SBS	Chr10	5392076	C-A	Homo	INTERGENIC
SBS	Chr10	5392077	C-T	Homo	INTERGENIC
SBS	Chr10	18124939	C-T	HET	INTERGENIC
SBS	Chr12	23687727	C-T	HET	UTR_3_PRIME

Deletions: 29

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	76895	86793	9898
Deletion	Chr1	312628	312632	4
Deletion	Chr8	506335	506349	14
Deletion	Chr1	552921	552922	1	LOC_Os01g02020
Deletion	Chr5	1222001	1282000	60000	8
Deletion	Chr10	2129654	2144226	14572	3
Deletion	Chr12	3634834	3634835	1
Deletion	Chr7	3642698	3642700	2
Deletion	Chr2	3850614	3850616	2
Deletion	Chr4	4832862	4832882	20	LOC_Os04g08816
Deletion	Chr10	5392084	5392088	4
Deletion	Chr6	5542217	5542222	5
Deletion	Chr4	5684873	5684879	6
Deletion	Chr1	7405569	7405673	104
Deletion	Chr11	7559041	7559042	1
Deletion	Chr1	8408527	8410589	2062
Deletion	Chr1	8417594	8417597	3
Deletion	Chr11	8917669	8917670	1
Deletion	Chr4	15287960	15287971	11
Deletion	Chr10	16285926	16288494	2568
Deletion	Chr2	16381350	16381356	6	LOC_Os02g27650
Deletion	Chr12	16606005	16629975	23970	2
Deletion	Chr11	16957307	16957308	1
Deletion	Chr12	17622579	17622580	1
Deletion	Chr12	18863732	18863737	5
Deletion	Chr9	21822733	21822734	1
Deletion	Chr1	22222977	22222981	4
Deletion	Chr3	22610374	22610375	1
Deletion	Chr6	30204895	30204896	1

Insertions: 9

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr3	7208988	7208988	1
Insertion	Chr3	35121291	35121291	1	LOC_Os03g61950
Insertion	Chr4	4275607	4275609	3
Insertion	Chr4	29302177	29302177	1
Insertion	Chr5	10663396	10663396	1
Insertion	Chr6	8120403	8120403	1
Insertion	Chr9	14309642	14309642	1
Insertion	Chr11	23693207	23693211	5
Insertion	Chr11	26895036	26895051	16

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	8506503	9320151	LOC_Os11g15110
Inversion	Chr11	8507649	9320154

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	8506518	Chr9	22521730	LOC_Os11g15110
Translocation	Chr11	8507623	Chr9	22521731

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