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Mutant Information

Mutant Name	FN1346-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1346-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: 46

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13204505	C-A	HET	INTERGENIC
SBS	Chr1	17176795	A-G	HET	INTERGENIC
SBS	Chr1	26346272	G-A	HET	INTERGENIC
SBS	Chr1	31035174	A-T	HET	INTERGENIC
SBS	Chr1	40014515	G-A	HET	INTERGENIC
SBS	Chr10	11156211	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g21730
SBS	Chr10	11533565	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g22300
SBS	Chr10	17584391	A-T	HOMO	INTERGENIC
SBS	Chr10	18025807	G-A	HET	INTERGENIC
SBS	Chr10	3078136	T-A	HET	INTERGENIC
SBS	Chr10	3078137	C-A	HET	INTERGENIC
SBS	Chr11	10367644	C-A	HET	INTRON
SBS	Chr11	15325900	T-C	HET	INTERGENIC
SBS	Chr11	4512967	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os11g08542
SBS	Chr11	8789587	T-A	HET	INTERGENIC
SBS	Chr12	26806715	A-G	HOMO	START_GAINED	LOC_Os12g43165
SBS	Chr2	28203092	G-A	HET	INTERGENIC
SBS	Chr2	30684814	G-A	HET	INTERGENIC
SBS	Chr3	14955497	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr3	16214150	G-A	HET	INTERGENIC
SBS	Chr3	34355514	G-A	HOMO	INTERGENIC
SBS	Chr4	11051361	G-T	HET	INTERGENIC
SBS	Chr4	13786619	C-T	HET	INTERGENIC
SBS	Chr4	18195538	T-C	HET	INTERGENIC
SBS	Chr4	2069070	A-G	HET	INTERGENIC
SBS	Chr4	33299645	G-A	HOMO	INTERGENIC
SBS	Chr5	12322506	G-A	HET	INTRON
SBS	Chr5	1783468	G-A	HOMO	INTERGENIC
SBS	Chr5	23727165	A-G	HOMO	INTERGENIC
SBS	Chr6	13500136	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g23140
SBS	Chr6	26741817	A-G	HOMO	SYNONYMOUS_CODING
SBS	Chr6	26741818	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os06g44300
SBS	Chr6	26741819	G-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os06g44300
SBS	Chr6	5628264	C-T	HET	INTERGENIC
SBS	Chr6	5831383	T-C	HET	INTRON
SBS	Chr7	10886937	G-C	HOMO	SYNONYMOUS_CODING
SBS	Chr7	10896277	T-A	HOMO	INTERGENIC
SBS	Chr7	10896279	T-A	HOMO	INTERGENIC
SBS	Chr7	10896280	G-A	HOMO	INTERGENIC
SBS	Chr7	12692413	T-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os07g22550
SBS	Chr7	5509583	C-G	HOMO	INTRON
SBS	Chr8	16106832	C-A	HET	INTRON
SBS	Chr8	23511755	G-A	HOMO	INTERGENIC
SBS	Chr9	13068635	T-C	HOMO	INTERGENIC
SBS	Chr9	13585154	G-A	HOMO	INTERGENIC
SBS	Chr9	18385450	A-G	HET	INTERGENIC

Deletions: 29

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	587684	587690	6	LOC_Os06g02028
Deletion	Chr7	1839777	1839780	3
Deletion	Chr8	2359600	2359606	6	LOC_Os08g04730
Deletion	Chr8	3106241	3106246	5
Deletion	Chr3	4451288	4451289	1
Deletion	Chr7	4984621	4984622	1
Deletion	Chr4	6010017	6010038	21
Deletion	Chr12	7285331	7285333	2
Deletion	Chr11	8202774	8202777	3
Deletion	Chr4	8472658	8472664	6
Deletion	Chr5	9310042	9310043	1
Deletion	Chr1	10399892	10399894	2
Deletion	Chr10	11209388	11209389	1
Deletion	Chr7	12479344	12479355	11
Deletion	Chr10	13193016	13193025	9
Deletion	Chr2	13946704	13946709	5
Deletion	Chr12	15832407	15832408	1
Deletion	Chr4	16291054	16291065	11
Deletion	Chr3	19371419	19371422	3
Deletion	Chr9	20593474	20593478	4	LOC_Os09g35790
Deletion	Chr3	21529231	21529243	12	LOC_Os03g38764
Deletion	Chr3	24360039	24360045	6
Deletion	Chr3	24360046	24360052	6
Deletion	Chr6	26770735	26770736	1
Deletion	Chr8	27580634	27953391	372757	74
Deletion	Chr3	29607353	29607369	16
Deletion	Chr4	31218747	31218752	5	LOC_Os04g52500
Deletion	Chr1	33985511	33985517	6
Deletion	Chr1	41489665	41489674	9	LOC_Os01g71620

Insertions: 11

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	2223380	2223381	2
Insertion	Chr11	27475952	27475960	9
Insertion	Chr3	15810631	15810631	1
Insertion	Chr4	6011224	6011224	1
Insertion	Chr5	6514541	6514541	1
Insertion	Chr6	3255931	3255932	2
Insertion	Chr6	3964982	3964982	1
Insertion	Chr8	17492739	17492744	6	LOC_Os08g28630
Insertion	Chr8	20131861	20131862	2
Insertion	Chr9	15701942	15701943	2
Insertion	Chr9	18460070	18460070	1

Inversions: 6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	9221500	9257470
Inversion	Chr10	16566232	16604229	LOC_Os10g31610
Inversion	Chr10	16566268	16597330	LOC_Os10g31610
Inversion	Chr3	18660677	18792485	LOC_Os03g32850
Inversion	Chr3	18791950	18966068	LOC_Os03g32850
Inversion	Chr6	22487423	22520999

Translocations: 9

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	16566224	Chr3	18966064	LOC_Os10g31610
Translocation	Chr10	16566233	Chr7	7720283	2
Translocation	Chr10	16597281	Chr3	18965819
Translocation	Chr10	16597293	Chr1	40134376	LOC_Os01g69060
Translocation	Chr10	16599230	Chr1	40134368	LOC_Os01g69060
Translocation	Chr10	16604229	Chr7	7719962	LOC_Os07g13460
Translocation	Chr10	16604290	Chr3	18176931
Translocation	Chr8	24785657	Chr3	18176907	LOC_Os08g39240
Translocation	Chr8	24785942	Chr3	18176815	LOC_Os08g39240

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