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Mutant Information

Mutant Name	FN1403-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1403-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 25

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10696927	C-T	HOMO	INTERGENIC
SBS	Chr1	39153452	A-C	HET	INTERGENIC
SBS	Chr1	9181635	T-C	HET	SYNONYMOUS_CODING
SBS	Chr10	17738758	C-T	HOMO	INTERGENIC
SBS	Chr10	1895170	G-A	HOMO	INTERGENIC
SBS	Chr10	5139146	G-T	HET	INTERGENIC
SBS	Chr11	3799714	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g07490
SBS	Chr12	12664634	G-A	HOMO	INTERGENIC
SBS	Chr12	16557131	G-A	HET	INTERGENIC
SBS	Chr3	15515145	T-A	HET	INTERGENIC
SBS	Chr3	23478050	G-T	HET	INTERGENIC
SBS	Chr3	27685356	T-C	HET	INTERGENIC
SBS	Chr3	35503209	G-T	HET	UTR_3_PRIME
SBS	Chr5	18279856	G-T	HET	INTERGENIC
SBS	Chr5	4794471	C-T	HOMO	INTERGENIC
SBS	Chr5	7128914	A-G	HOMO	INTERGENIC
SBS	Chr6	24180715	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr7	15316028	C-T	HET	INTERGENIC
SBS	Chr7	15573198	A-T	HOMO	INTERGENIC
SBS	Chr7	20182443	C-T	HET	INTERGENIC
SBS	Chr7	28169912	G-A	HET	INTERGENIC
SBS	Chr8	11356737	G-A	HOMO	INTRON
SBS	Chr8	7516616	T-C	HOMO	INTERGENIC
SBS	Chr9	10016690	T-A	HOMO	STOP_GAINED	LOC_Os09g16380
SBS	Chr9	10016693	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g16380

Deletions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	4518083	4518089	6
Deletion	Chr9	10020011	10020012	1
Deletion	Chr1	11179345	11179347	2	LOC_Os01g19710
Deletion	Chr12	13523557	13523759	202
Deletion	Chr9	13993440	13993447	7
Deletion	Chr9	15172626	15172627	1
Deletion	Chr3	15517278	15517281	3
Deletion	Chr4	17167515	17167516	1
Deletion	Chr10	17624640	17624656	16
Deletion	Chr7	19355115	19355117	2
Deletion	Chr3	19589001	19724000	135000	21
Deletion	Chr9	19714487	19714503	16
Deletion	Chr3	19883829	19883837	8
Deletion	Chr3	22512455	22512466	11	LOC_Os03g40490
Deletion	Chr1	24766342	24766372	30	LOC_Os01g43330
Deletion	Chr12	26407945	26407946	1
Deletion	Chr3	29834923	29834952	29
Deletion	Chr1	30317345	30317360	15
Deletion	Chr3	35502209	35502217	8
Deletion	Chr1	38863974	38863975	1
Deletion	Chr1	39431442	39431448	6
Deletion	Chr1	41505973	41506002	29

Insertions: 7

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	17261873	17261874	2
Insertion	Chr12	1422485	1422485	1
Insertion	Chr12	23490639	23490640	2
Insertion	Chr2	16683162	16683162	1
Insertion	Chr7	1455532	1455543	12
Insertion	Chr8	15775935	15775935	1
Insertion	Chr8	9212042	9212042	1

Inversions: 13

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	397095	1160279	LOC_Os11g03190
Inversion	Chr3	1738688	2008867	LOC_Os03g03860
Inversion	Chr3	1738843	2008873	LOC_Os03g03860
Inversion	Chr9	10282518	10344417
Inversion	Chr9	10289200	12677849	LOC_Os09g21020
Inversion	Chr9	10344376	10345472
Inversion	Chr9	10345469	12680825	LOC_Os09g21020
Inversion	Chr12	18896803	26598245
Inversion	Chr3	21961283	21978264	LOC_Os03g39580
Inversion	Chr3	22910087	23467061
Inversion	Chr3	22910202	23467071
Inversion	Chr1	41537673	41990063	LOC_Os01g71680
Inversion	Chr1	41539794	41990158	LOC_Os01g71690

Translocations: 7

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr3	1738706	Chr1	41539793	2
Translocation	Chr3	1738884	Chr1	41990158	LOC_Os03g03860
Translocation	Chr10	2003607	Chr4	23180228	LOC_Os04g39030
Translocation	Chr9	10282507	Chr2	14996296
Translocation	Chr9	10287065	Chr2	14996284
Translocation	Chr12	13523798	Chr1	41539831	LOC_Os01g71690
Translocation	Chr3	18216853	Chr1	9105546	LOC_Os03g31839

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