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Mutant Information

Mutant Name	FN-79 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-79 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: 21

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	39691931	G-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g68320
SBS	Chr11	10541977	T-C	HET	INTERGENIC
SBS	Chr11	12645753	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os11g22000
SBS	Chr11	16922525	C-T	HET	INTERGENIC
SBS	Chr2	11857669	A-C	HET	INTERGENIC
SBS	Chr2	15749306	T-G	HET	INTERGENIC
SBS	Chr2	28942565	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g47410
SBS	Chr3	15120390	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os03g26460
SBS	Chr3	20276847	G-A	HET	INTRON
SBS	Chr3	24374368	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g43610
SBS	Chr3	27481755	G-A	HOMO	INTERGENIC
SBS	Chr4	28670715	T-C	HOMO	INTERGENIC
SBS	Chr4	28819602	G-A	HOMO	INTERGENIC
SBS	Chr4	28819603	T-A	HOMO	INTERGENIC
SBS	Chr4	7025607	C-T	HOMO	INTRON
SBS	Chr5	437010	G-C	HOMO	UTR_5_PRIME
SBS	Chr6	28822643	T-G	HET	INTERGENIC
SBS	Chr7	2285666	C-T	HET	INTERGENIC
SBS	Chr7	23382455	T-G	HET	INTERGENIC
SBS	Chr8	12651862	T-A	HET	INTERGENIC
SBS	Chr8	16903387	C-G	HET	INTERGENIC

Deletions: 16

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	523863	523864	1
Deletion	Chr12	781290	781292	2
Deletion	Chr12	5736200	5736201	1
Deletion	Chr6	6971630	6971635	5
Deletion	Chr12	9256343	9256796	453
Deletion	Chr7	9848034	9848040	6
Deletion	Chr10	12811423	12811424	1
Deletion	Chr10	18015606	18028241	12635	LOC_Os10g33920
Deletion	Chr9	18768863	18768866	3
Deletion	Chr2	19302044	19302045	1
Deletion	Chr4	24737521	24737522	1
Deletion	Chr8	25310001	25395000	85000	18
Deletion	Chr1	26525271	26525323	52	LOC_Os01g46590
Deletion	Chr4	28123001	28400000	277000	46
Deletion	Chr3	29083347	29083362	15
Deletion	Chr3	31152218	31152233	15

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr3	34789048	34789048	1
Insertion	Chr6	29052637	29052638	2
Insertion	Chr7	28173836	28173836	1
Insertion	Chr8	26442291	26442292	2

No Inversion

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	9256377	Chr4	24005233	LOC_Os04g40380
Translocation	Chr12	9256731	Chr11	20142714	LOC_Os11g34364
Translocation	Chr11	20142713	Chr10	17470345	LOC_Os11g34364
Translocation	Chr11	20256927	Chr10	17473219	2

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