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Mutant Information

Mutant Name	FN1135-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1135-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:0000430 (Germination Rate) = Low (Between 25% and 75%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Phenotype Changes (Hover to Zoom-In)
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 25

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10954371	G-A	HET	INTRON
SBS	Chr1	17464025	C-A	HET	INTRON
SBS	Chr1	38558000	G-T	HET	SYNONYMOUS_CODING
SBS	Chr1	38558002	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os01g66379
SBS	Chr10	17265405	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os10g32980
SBS	Chr10	17883302	T-G	HET	INTERGENIC
SBS	Chr10	6778900	A-T	HET	INTERGENIC
SBS	Chr11	13799841	T-C	HET	INTERGENIC
SBS	Chr11	22630088	C-A	HOMO	INTERGENIC
SBS	Chr11	23816458	G-A	HOMO	INTERGENIC
SBS	Chr11	9981774	G-A	HET	INTRON
SBS	Chr12	3993644	C-T	HET	INTRON
SBS	Chr2	30653835	C-A	HOMO	INTRON
SBS	Chr2	31455036	G-A	HOMO	INTERGENIC
SBS	Chr3	3676302	C-T	HET	INTRON
SBS	Chr4	2009016	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g04290
SBS	Chr5	6417555	C-T	HET	INTERGENIC
SBS	Chr7	16719969	G-A	HOMO	INTERGENIC
SBS	Chr7	16719970	G-A	HOMO	INTERGENIC
SBS	Chr7	21930601	G-A	HET	INTERGENIC
SBS	Chr7	7837106	C-T	HET	INTERGENIC
SBS	Chr8	19681060	A-G	HET	INTERGENIC
SBS	Chr9	11657418	T-A	HOMO	INTERGENIC
SBS	Chr9	11972150	G-A	HET	INTERGENIC
SBS	Chr9	8233485	C-T	HET	INTERGENIC

Deletions: 29

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	1779535	1779569	34
Deletion	Chr7	2508686	2508697	11
Deletion	Chr7	4030117	4030120	3	LOC_Os07g07990
Deletion	Chr11	5673100	5673111	11
Deletion	Chr12	8459840	8459842	2
Deletion	Chr11	9917671	9917673	2	LOC_Os11g17740
Deletion	Chr6	12813952	12813972	20
Deletion	Chr10	15027001	15072000	45000	9
Deletion	Chr6	15630732	15632324	1592	LOC_Os06g27630
Deletion	Chr10	16090738	16090739	1
Deletion	Chr11	17308907	17308908	1
Deletion	Chr3	17541140	17541141	1
Deletion	Chr1	18185617	18185619	2
Deletion	Chr1	19016296	19044907	28611	5
Deletion	Chr7	19026030	19026032	2
Deletion	Chr2	19858325	19858326	1
Deletion	Chr1	20022648	20022650	2
Deletion	Chr8	20836443	20836445	2
Deletion	Chr1	21314001	21825000	511000	76
Deletion	Chr8	23451578	23451587	9	LOC_Os08g37115
Deletion	Chr4	24132276	24132289	13
Deletion	Chr7	25370686	25370715	29
Deletion	Chr3	25580816	25580829	13
Deletion	Chr3	26689070	26689078	8
Deletion	Chr6	27010691	27010697	6
Deletion	Chr4	27753065	27753066	1
Deletion	Chr4	28962794	28962795	1
Deletion	Chr1	29365632	29365637	5	LOC_Os01g51120
Deletion	Chr2	33673050	33673081	31

Insertions: 7

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr11	23050004	23050005	2
Insertion	Chr12	20273258	20273259	2
Insertion	Chr12	23551114	23551115	2
Insertion	Chr2	12353499	12353502	4
Insertion	Chr4	18959179	18959180	2
Insertion	Chr4	26251100	26251100	1	LOC_Os04g44320
Insertion	Chr6	27095370	27095370	1

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	15030310	16265459
Inversion	Chr7	16388242	17687708	LOC_Os07g30020
Inversion	Chr7	16388401	17687730	LOC_Os07g30020
Inversion	Chr1	37890259	38156305	2

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	3712680	Chr1	21825815	2
Translocation	Chr4	6944309	Chr1	37473759
Translocation	Chr4	6944318	Chr1	37472724	LOC_Os01g64590
Translocation	Chr7	16718148	Chr1	21760272	LOC_Os01g38780
Translocation	Chr7	17792809	Chr1	21760573	2

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