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Mutant Information

Mutant Name	FN1076-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1076-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Normal (Between 75% and 125%) 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
Phenotype Changes (Hover to Zoom-In)
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 32

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10381556	C-T	HET	INTRON
SBS	Chr1	12130833	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os01g21650
SBS	Chr1	23771061	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g41910
SBS	Chr1	25369840	C-T	HOMO	INTRON
SBS	Chr1	40502152	C-T	HET	INTRON
SBS	Chr10	10638516	A-G	HET	INTRON
SBS	Chr10	16370041	G-A	HET	INTERGENIC
SBS	Chr12	20981599	G-T	HET	INTERGENIC
SBS	Chr12	7446959	A-T	HET	INTERGENIC
SBS	Chr2	31226574	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g51050
SBS	Chr3	17146514	C-G	HOMO	INTERGENIC
SBS	Chr3	25225033	G-A	HET	INTERGENIC
SBS	Chr3	27067163	C-T	HET	INTERGENIC
SBS	Chr3	30904379	G-A	HET	INTRON
SBS	Chr3	30904725	A-T	HET	INTRON
SBS	Chr3	3120045	C-T	HOMO	UTR_3_PRIME
SBS	Chr4	17086786	C-T	HOMO	INTERGENIC
SBS	Chr4	20735769	C-G	HOMO	INTRON
SBS	Chr4	3090101	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g05970
SBS	Chr5	1094161	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g02950
SBS	Chr5	13933874	A-G	HOMO	INTERGENIC
SBS	Chr5	18410515	T-C	HOMO	INTERGENIC
SBS	Chr5	26215187	C-T	HET	INTERGENIC
SBS	Chr5	3801182	A-G	HET	INTRON
SBS	Chr6	13986799	C-T	HOMO	INTERGENIC
SBS	Chr6	1681340	C-T	HET	INTERGENIC
SBS	Chr6	22418075	G-T	HOMO	INTRON
SBS	Chr6	2474429	A-G	HET	INTERGENIC
SBS	Chr8	13068842	C-A	HOMO	INTERGENIC
SBS	Chr9	1941112	A-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g03830
SBS	Chr9	20871298	C-A	HET	INTERGENIC
SBS	Chr9	21074352	C-T	HET	SYNONYMOUS_CODING

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr2	3711454	3711457	3	LOC_Os02g07220
Deletion	Chr4	4273185	4273188	3
Deletion	Chr7	5806315	5806317	2
Deletion	Chr10	7816362	7816373	11
Deletion	Chr2	7925107	7925137	30
Deletion	Chr12	10471781	10471782	1
Deletion	Chr7	13217634	13217649	15
Deletion	Chr11	13613698	13613700	2
Deletion	Chr1	14635774	14656786	21012	LOC_Os01g25839
Deletion	Chr1	14912452	14912453	1
Deletion	Chr7	15064389	15064390	1
Deletion	Chr10	18171501	18171520	19
Deletion	Chr3	18715001	19068000	353000	61
Deletion	Chr5	18745726	18745734	8
Deletion	Chr7	19576627	19576628	1
Deletion	Chr3	22663565	22663566	1	LOC_Os03g40725
Deletion	Chr3	23568476	23568482	6	LOC_Os03g42370
Deletion	Chr11	23974342	23974360	18
Deletion	Chr6	25156304	25156308	4

Insertions: 9

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	12149114	12149115	2
Insertion	Chr1	33477026	33477031	6
Insertion	Chr12	25463863	25463866	4
Insertion	Chr3	32775225	32775227	3
Insertion	Chr5	2128342	2128342	1
Insertion	Chr5	6316576	6316581	6
Insertion	Chr7	22426877	22426880	4
Insertion	Chr8	25824153	25824154	2
Insertion	Chr9	7514386	7514386	1

No Inversion

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr4	1697763	Chr1	22958758	LOC_Os01g40630
Translocation	Chr4	11225765	Chr1	13093223	LOC_Os01g23310
Translocation	Chr7	17250533	Chr4	5000289	LOC_Os04g09380

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