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Mutant Information

Mutant Name	FN-393 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-393 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 17

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	22840503	G-T	HET	INTERGENIC
SBS	Chr1	27376743	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g47820
SBS	Chr10	11852717	C-T	HET	INTERGENIC
SBS	Chr11	1219106	A-G	HOMO	INTERGENIC
SBS	Chr11	19054589	G-A	HET	INTERGENIC
SBS	Chr11	23201147	C-T	HOMO	INTERGENIC
SBS	Chr11	24404003	G-C	HOMO	INTERGENIC
SBS	Chr12	19459332	G-A	HOMO	INTERGENIC
SBS	Chr3	27301539	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g48030
SBS	Chr3	30836646	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g53790
SBS	Chr4	31000340	C-G	HET	SYNONYMOUS_CODING
SBS	Chr5	2654491	A-G	HOMO	INTRON
SBS	Chr5	9774499	C-T	HET	INTRON
SBS	Chr8	26937610	C-T	HOMO	INTERGENIC
SBS	Chr8	26937611	T-A	HOMO	INTERGENIC
SBS	Chr8	26937612	G-A	HOMO	INTERGENIC
SBS	Chr9	3507235	G-T	HET	INTERGENIC

Deletions: 10

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	306568	306569	1	LOC_Os12g01510
Deletion	Chr3	8124348	8124358	10	LOC_Os03g14900
Deletion	Chr6	9440745	9440755	10
Deletion	Chr3	9478196	9478401	205
Deletion	Chr4	9679564	9679570	6
Deletion	Chr3	9694782	9694804	22
Deletion	Chr6	10587898	10587900	2
Deletion	Chr4	11529729	11529745	16
Deletion	Chr10	18840347	18840353	6
Deletion	Chr8	24243492	24243493	1

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr2	24146279	24146282	4
Insertion	Chr4	31000329	31000330	2	LOC_Os04g52180
Insertion	Chr5	19049178	19049179	2
Insertion	Chr5	20118640	20118640	1

No Inversion

No Translocation