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Mutant Information

Mutant Name	FN1429-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1429-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) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 32

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	7895699	G-A	HET	INTRON
SBS	Chr1	33958819	C-T	HET	INTRON
SBS	Chr2	834031	C-T	HOMO	INTERGENIC
SBS	Chr3	6278231	T-A	HOMO	INTRON
SBS	Chr3	15148438	G-A	HET	INTERGENIC
SBS	Chr3	21553602	C-T	HET	INTERGENIC
SBS	Chr3	35289354	A-T	HET	UTR_5_PRIME
SBS	Chr4	12046728	T-A	HOMO	INTERGENIC
SBS	Chr4	28941783	A-T	HET	INTRON
SBS	Chr5	3436964	T-C	HET	INTRON
SBS	Chr5	13343395	C-A	HET	INTRON
SBS	Chr5	13343396	T-A	HET	INTRON
SBS	Chr5	27888683	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os05g48660
SBS	Chr7	24151573	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g40290
SBS	Chr8	5210912	T-A	HOMO	INTERGENIC
SBS	Chr8	13060568	C-A	HET	SYNONYMOUS_CODING
SBS	Chr9	21893883	T-G	HET	INTERGENIC
SBS	Chr10	17006436	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os10g32444
SBS	Chr11	2780495	T-C	HET	INTRON
SBS	Chr11	13608097	G-A	HET	INTERGENIC
SBS	Chr11	14964154	A-T	HET	INTRON
SBS	Chr11	14964155	A-T	HET	INTRON
SBS	Chr11	15751770	A-G	HOMO	INTERGENIC
SBS	Chr11	25580506	T-C	HOMO	INTERGENIC
SBS	Chr11	27458566	C-G	HET	INTERGENIC
SBS	Chr12	3020411	G-T	HET	INTERGENIC
SBS	Chr12	5186360	C-A	HET	INTERGENIC
SBS	Chr12	8618498	C-A	HET	SYNONYMOUS_CODING
SBS	Chr12	16560760	T-A	HET	INTERGENIC
SBS	Chr12	16560767	T-G	HET	INTERGENIC
SBS	Chr12	16753491	C-T	HET	INTERGENIC
SBS	Chr12	18878211	T-G	HET	INTRON

Deletions: 18

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	2514228	2514229	1	LOC_Os11g05552
Deletion	Chr7	3363941	3364016	75	LOC_Os07g06890
Deletion	Chr4	5755286	5755301	15
Deletion	Chr9	12420333	12420334	1
Deletion	Chr2	13963309	13963315	6
Deletion	Chr8	14103179	14103180	1
Deletion	Chr1	14725443	14725455	12
Deletion	Chr4	16697622	16697644	22
Deletion	Chr12	17001099	17001103	4
Deletion	Chr3	22546051	22546052	1
Deletion	Chr1	25167936	25167946	10
Deletion	Chr12	25916136	25916138	2
Deletion	Chr7	26547214	26547220	6
Deletion	Chr5	27887640	27887645	5	LOC_Os05g48660
Deletion	Chr3	29629096	29629100	4
Deletion	Chr3	30631566	30631581	15
Deletion	Chr2	35873001	35938000	65000	9
Deletion	Chr1	39278929	39278930	1	LOC_Os01g67580

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr4	347730	347733	4
Insertion	Chr8	9879762	9879763	2
Insertion	Chr9	20133590	20133594	5

Inversions: 8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	3907333	9364137	LOC_Os12g16350
Inversion	Chr10	8916342	10140629	LOC_Os10g20190
Inversion	Chr12	9525792	9975477
Inversion	Chr4	23385366	34062474	LOC_Os04g57154
Inversion	Chr12	26076954	26098406
Inversion	Chr12	26077118	26098424
Inversion	Chr1	36421252	39203521	LOC_Os01g62890
Inversion	Chr1	36422343	39203517	LOC_Os01g62890

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2
Translocation	Chr12	3907347	Chr4	23385371
Translocation	Chr12	9525812	Chr2	35872929
Translocation	Chr11	15350181	Chr1	3774685
Translocation	Chr5	16961476	Chr3	4463814

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