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Mutant Information

Mutant Name	FN1481-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1481-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) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 43

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	20713841	G-A	HET	INTERGENIC
SBS	Chr1	21499131	G-A	HET	INTERGENIC
SBS	Chr1	22722794	C-A	HET	INTRON
SBS	Chr1	33227212	G-A	HET	INTERGENIC
SBS	Chr10	166536	T-C	HET	INTERGENIC
SBS	Chr10	21831391	C-T	HET	SPLICE_SITE_DONOR	LOC_Os10g40700
SBS	Chr11	15098597	T-C	HET	INTERGENIC
SBS	Chr11	15274259	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g26670
SBS	Chr11	15567450	G-T	HET	INTERGENIC
SBS	Chr11	21549837	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os11g36520
SBS	Chr11	7197352	G-A	HET	INTRON
SBS	Chr12	14984577	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os12g25830
SBS	Chr12	16744886	A-G	HET	INTERGENIC
SBS	Chr12	17264304	G-C	HET	INTRON
SBS	Chr12	20106504	C-T	HET	UTR_5_PRIME
SBS	Chr12	23860292	C-T	HET	INTERGENIC
SBS	Chr12	8600903	G-A	Homo	INTRON
SBS	Chr12	9901788	G-A	HET	STOP_GAINED	LOC_Os12g17300
SBS	Chr2	16919823	C-A	HET	INTERGENIC
SBS	Chr2	5901867	A-T	HET	INTERGENIC
SBS	Chr2	5901868	A-T	HET	INTERGENIC
SBS	Chr3	1703159	T-A	HET	INTERGENIC
SBS	Chr3	27078647	G-T	HET	INTERGENIC
SBS	Chr3	6713200	T-C	HET	INTERGENIC
SBS	Chr4	12890685	A-T	Homo	INTERGENIC
SBS	Chr4	2848303	T-C	HET	INTERGENIC
SBS	Chr4	33549670	G-A	HET	INTERGENIC
SBS	Chr4	5930085	C-G	Homo	INTERGENIC
SBS	Chr5	10229119	T-C	Homo	INTERGENIC
SBS	Chr5	23479082	A-T	HET	INTERGENIC
SBS	Chr5	5169339	C-T	HET	INTERGENIC
SBS	Chr5	848215	T-A	HET	INTERGENIC
SBS	Chr6	19339850	T-C	HET	INTRON
SBS	Chr6	20965721	G-A	HET	INTERGENIC
SBS	Chr6	25622927	A-T	HET	INTERGENIC
SBS	Chr6	2719636	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g05940
SBS	Chr6	3717452	G-A	HET	INTERGENIC
SBS	Chr7	16801055	C-T	HET	INTERGENIC
SBS	Chr7	25639784	A-G	HET	UTR_3_PRIME
SBS	Chr9	15572200	G-A	HET	INTERGENIC
SBS	Chr9	16275736	G-C	HET	INTERGENIC
SBS	Chr9	2629915	C-T	Homo	INTERGENIC
SBS	Chr9	3209899	T-A	HET	INTERGENIC

Deletions: 30

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	2094258	2094259	1
Deletion	Chr6	2216295	2216297	2
Deletion	Chr4	5072751	5072768	17	LOC_Os04g09470
Deletion	Chr10	5408101	5408104	3
Deletion	Chr2	5763595	5763601	6	LOC_Os02g10860
Deletion	Chr2	5763597	5763603	6	LOC_Os02g10860
Deletion	Chr6	8256194	8256197	3
Deletion	Chr6	9771771	9771773	2
Deletion	Chr11	10359413	10359415	2	LOC_Os11g18366
Deletion	Chr8	11177016	11184001	6985	LOC_Os08g18730
Deletion	Chr3	11891353	11891354	1
Deletion	Chr6	13667352	13667353	1
Deletion	Chr5	14664663	14664668	5	LOC_Os05g25260
Deletion	Chr3	14826325	14826339	14
Deletion	Chr3	14973909	14973910	1
Deletion	Chr9	16612833	16612839	6
Deletion	Chr4	17912001	18014000	102000	16
Deletion	Chr5	19247374	19247376	2
Deletion	Chr4	19460945	19460946	1
Deletion	Chr1	19812499	19812551	52	LOC_Os01g35770
Deletion	Chr8	20754458	20754459	1
Deletion	Chr2	21243001	21299000	56000	4
Deletion	Chr8	22508696	22508701	5
Deletion	Chr1	23379660	23379700	40
Deletion	Chr4	24008097	24008098	1
Deletion	Chr3	24939390	24939394	4	LOC_Os03g44360
Deletion	Chr12	26240954	26240955	1
Deletion	Chr3	27078619	27078627	8
Deletion	Chr5	28810990	28810994	4
Deletion	Chr1	39427416	39427417	1

Insertions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	15100693	15100694	2
Insertion	Chr1	28254758	28254758	1
Insertion	Chr1	3328683	3328683	1	LOC_Os01g07080
Insertion	Chr10	15018748	15018763	16
Insertion	Chr11	15420607	15420619	13	LOC_Os11g26850
Insertion	Chr11	21356093	21356094	2
Insertion	Chr11	3710388	3710389	2
Insertion	Chr12	22116317	22116322	6
Insertion	Chr12	26703691	26703693	3
Insertion	Chr2	30643102	30643103	2
Insertion	Chr2	7137679	7137680	2
Insertion	Chr3	18264795	18264833	39
Insertion	Chr3	20862116	20862157	42
Insertion	Chr6	12426940	12426940	1
Insertion	Chr6	18645796	18645804	9
Insertion	Chr6	3830741	3830741	1
Insertion	Chr6	4954847	4954848	2
Insertion	Chr6	7546264	7546265	2	LOC_Os06g13630
Insertion	Chr7	17087951	17087956	6
Insertion	Chr7	215930	215931	2
Insertion	Chr8	8570439	8570439	1
Insertion	Chr9	5460294	5460294	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	9468030	12373226
Inversion	Chr10	11043592	11141352

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr4	8612022	Chr3	25690362	LOC_Os03g45519
Translocation	Chr7	12663529	Chr5	18333720
Translocation	Chr7	12663536	Chr3	9468039
Translocation	Chr11	26646875	Chr10	11141355

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