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Mutant Information

Mutant Name	FN1442-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1442-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Low (Between 25% and 74%) TO:0000639 (Seed fertility) = Low (Between 25% and 74%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 41

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15807549	G-A	HET	INTERGENIC
SBS	Chr1	19829022	G-A	HET	SYNONYMOUS_CODING
SBS	Chr1	36804635	G-A	HOMO	INTERGENIC
SBS	Chr1	38572294	A-T	HET	INTERGENIC
SBS	Chr1	8689271	A-G	HET	INTERGENIC
SBS	Chr11	13054570	C-A	HET	INTERGENIC
SBS	Chr11	21552861	A-T	HOMO	INTRON
SBS	Chr11	26089589	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g43250
SBS	Chr11	5544898	C-T	HET	INTERGENIC
SBS	Chr12	13894111	C-T	HOMO	INTERGENIC
SBS	Chr12	26194760	G-T	HET	UTR_3_PRIME
SBS	Chr12	26568237	T-G	HET	INTERGENIC
SBS	Chr12	8234326	C-A	HET	INTERGENIC
SBS	Chr12	908036	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g02620
SBS	Chr12	9957165	G-A	HOMO	INTERGENIC
SBS	Chr2	15479254	C-A	HET	INTERGENIC
SBS	Chr2	21370549	G-A	HOMO	INTERGENIC
SBS	Chr3	11986910	C-A	HET	INTERGENIC
SBS	Chr3	13502297	G-A	HOMO	INTERGENIC
SBS	Chr3	22433082	C-A	HET	INTERGENIC
SBS	Chr3	26744661	C-T	HET	INTERGENIC
SBS	Chr4	14119674	G-A	HET	SYNONYMOUS_CODING
SBS	Chr4	21374216	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g35170
SBS	Chr4	2738117	G-T	HET	INTERGENIC
SBS	Chr4	2738118	A-T	HET	INTERGENIC
SBS	Chr4	455276	A-T	HET	INTRON
SBS	Chr4	4921975	G-A	HET	INTERGENIC
SBS	Chr4	9741525	C-T	HOMO	INTERGENIC
SBS	Chr5	12320560	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os05g20950
SBS	Chr5	18923706	C-T	HET	INTERGENIC
SBS	Chr6	13971698	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g23910
SBS	Chr7	17505771	T-C	HOMO	INTRON
SBS	Chr7	19123782	G-C	HET	INTERGENIC
SBS	Chr7	4345132	T-A	HOMO	INTERGENIC
SBS	Chr7	9914621	G-A	HET	SYNONYMOUS_CODING
SBS	Chr8	12248210	A-G	HET	INTERGENIC
SBS	Chr8	1816990	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr8	3989692	C-A	HET	INTERGENIC
SBS	Chr8	8020293	T-C	HOMO	SYNONYMOUS_CODING
SBS	Chr9	21567511	G-A	HET	INTERGENIC
SBS	Chr9	21567531	C-T	HET	INTERGENIC

Deletions: 18

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	3060272	3060287	15
Deletion	Chr8	4327327	4327330	3
Deletion	Chr11	5411477	5411479	2
Deletion	Chr8	9382316	9382321	5
Deletion	Chr5	9756581	9756587	6	LOC_Os05g17090
Deletion	Chr6	10794197	10794213	16
Deletion	Chr6	14323409	14323420	11
Deletion	Chr9	16649614	16649627	13
Deletion	Chr9	17351664	17351675	11
Deletion	Chr1	17886773	17887008	235
Deletion	Chr5	20022461	20022473	12
Deletion	Chr4	21408230	21408231	1
Deletion	Chr5	24046507	24046508	1
Deletion	Chr7	25452971	25452988	17	LOC_Os07g42530
Deletion	Chr6	26149694	26149697	3
Deletion	Chr3	31146758	31146768	10
Deletion	Chr4	35363892	35363893	1
Deletion	Chr1	39194575	39201652	7077	LOC_Os01g67450

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr2	28012238	28012239	2
Insertion	Chr5	28034317	28034317	1
Insertion	Chr7	10285652	10285653	2	LOC_Os07g17420
Insertion	Chr7	24851127	24851130	4
Insertion	Chr8	16396233	16396258	26
Insertion	Chr8	9564202	9564202	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	15691180	15877600
Inversion	Chr9	17111631	17174114

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	8941254	Chr1	30237189

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr3	26151514	26151606	92

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