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Mutant Information

Mutant Name	FN1271-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1271-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) = Normal (Between 75% and 125%) 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: 27

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	38918749	G-A	HET	INTERGENIC
SBS	Chr10	12519704	G-A	HET	INTERGENIC
SBS	Chr10	12822110	C-T	HET	INTRON
SBS	Chr10	19776668	T-C	HOMO	INTERGENIC
SBS	Chr11	19905477	A-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g34050
SBS	Chr11	28664741	A-G	HET	INTERGENIC
SBS	Chr12	10915341	G-A	HOMO	INTERGENIC
SBS	Chr12	11440589	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g19610
SBS	Chr12	23396146	T-C	HOMO	INTERGENIC
SBS	Chr12	4916529	A-C	HET	INTERGENIC
SBS	Chr2	14102272	T-C	HET	INTERGENIC
SBS	Chr2	22182426	T-A	HET	INTERGENIC
SBS	Chr2	27547848	G-A	HET	INTERGENIC
SBS	Chr3	18088109	T-A	HET	INTRON
SBS	Chr3	23222044	G-A	HET	INTERGENIC
SBS	Chr3	29228146	T-A	HOMO	INTERGENIC
SBS	Chr3	29621867	C-T	HET	INTERGENIC
SBS	Chr3	32645884	A-G	HOMO	UTR_3_PRIME
SBS	Chr3	33774806	C-A	HOMO	INTERGENIC
SBS	Chr3	8655328	C-T	HET	INTERGENIC
SBS	Chr4	1249099	G-A	HOMO	INTRON
SBS	Chr4	14939565	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g25750
SBS	Chr4	22642831	C-T	HET	INTERGENIC
SBS	Chr4	33511067	G-A	HOMO	INTERGENIC
SBS	Chr4	9503032	C-T	HET	SYNONYMOUS_CODING
SBS	Chr5	16823315	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr6	5566393	G-A	HET	INTERGENIC

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	128001	204000	76000	14
Deletion	Chr4	1283144	1283146	2
Deletion	Chr3	1875706	1875707	1
Deletion	Chr11	4101669	4101670	1
Deletion	Chr11	4419351	4419352	1
Deletion	Chr6	7519727	7519729	2
Deletion	Chr5	8210802	8210803	1	LOC_Os05g14510
Deletion	Chr1	9149269	9149271	2
Deletion	Chr8	10309357	10309374	17
Deletion	Chr11	15146953	15146957	4
Deletion	Chr4	17464311	17464313	2
Deletion	Chr9	17509760	17509789	29
Deletion	Chr5	17711119	17711127	8
Deletion	Chr8	20747001	20800000	53000	4
Deletion	Chr7	21984019	21984021	2
Deletion	Chr2	22425728	22425739	11
Deletion	Chr8	23335944	23335949	5	LOC_Os08g36900
Deletion	Chr12	27496560	27496579	19	LOC_Os12g44360
Deletion	Chr4	27658350	27658354	4

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr5	19439920	19439920	1
Insertion	Chr6	6563681	6563681	1

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	203804	27528802	LOC_Os12g44390
Inversion	Chr4	11841674	17179887	LOC_Os04g21060
Inversion	Chr8	24307128	24655358
Inversion	Chr8	24307147	24655367

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr4	4219576	Chr1	33474596	LOC_Os01g57890

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