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Mutant Information

Mutant Name	FN1533-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1533-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: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: 36

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13393513	G-A	Homo	INTERGENIC
SBS	Chr1	13393515	G-A	Homo	INTERGENIC
SBS	Chr1	22681841	T-A	HET	INTERGENIC
SBS	Chr1	22681842	A-C	HET	INTERGENIC
SBS	Chr1	26161283	G-A	Homo	INTERGENIC
SBS	Chr1	40292919	T-A	HET	INTERGENIC
SBS	Chr1	42067988	A-T	HET	INTERGENIC
SBS	Chr1	9838497	C-T	HET	INTERGENIC
SBS	Chr10	15587033	C-T	HET	INTERGENIC
SBS	Chr10	19533257	G-A	HET	INTERGENIC
SBS	Chr10	2041592	T-C	HET	INTERGENIC
SBS	Chr10	4562341	C-T	HET	INTERGENIC
SBS	Chr11	11313522	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os11g19630
SBS	Chr11	11313524	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os11g19630
SBS	Chr11	25073409	A-G	HET	SYNONYMOUS_CODING
SBS	Chr12	11447632	T-C	Homo	INTERGENIC
SBS	Chr12	22490891	A-G	HET	INTRON
SBS	Chr2	17630531	G-A	HET	INTRON
SBS	Chr2	23748269	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os02g39340
SBS	Chr2	35100894	A-T	HET	INTERGENIC
SBS	Chr3	27595191	C-T	HET	INTERGENIC
SBS	Chr4	18723915	A-G	Homo	INTERGENIC
SBS	Chr4	22975886	C-T	HET	INTERGENIC
SBS	Chr4	27586977	C-A	Homo	STOP_GAINED	LOC_Os04g46510
SBS	Chr4	4672318	G-A	HET	SYNONYMOUS_CODING
SBS	Chr5	11377491	C-A	HET	SYNONYMOUS_CODING
SBS	Chr5	14201319	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr5	2356719	C-T	HET	INTERGENIC
SBS	Chr5	28070760	A-T	HET	INTERGENIC
SBS	Chr5	4201392	G-A	HET	INTERGENIC
SBS	Chr5	5154448	C-A	Homo	INTRON
SBS	Chr5	9829249	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os05g17160
SBS	Chr6	20303444	A-C	Homo	SYNONYMOUS_CODING
SBS	Chr7	14402631	G-A	HET	INTERGENIC
SBS	Chr8	13723591	G-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g22820
SBS	Chr9	7136797	T-A	HET	INTRON

Deletions: 60

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	572358	581935	9577
Deletion	Chr4	1276016	1276026	10
Deletion	Chr9	1373073	1373086	13
Deletion	Chr5	1548432	1548664	232	LOC_Os05g03620
Deletion	Chr2	2602892	2602902	10	LOC_Os02g05410
Deletion	Chr6	2789909	2789910	1	LOC_Os06g06060
Deletion	Chr4	4129140	4129141	1
Deletion	Chr5	4341307	4341308	1
Deletion	Chr11	4705153	4705155	2
Deletion	Chr10	5123859	5123860	1
Deletion	Chr6	5576576	5576611	35
Deletion	Chr5	5965664	5965871	207	LOC_Os05g10800
Deletion	Chr10	6037918	6037926	8
Deletion	Chr2	6475511	6475515	4
Deletion	Chr8	7096095	7096169	74
Deletion	Chr6	8253646	8253660	14
Deletion	Chr5	9390192	9390198	6
Deletion	Chr8	9504484	9504485	1
Deletion	Chr11	10153830	10153833	3
Deletion	Chr10	11225626	11225630	4	LOC_Os10g21840
Deletion	Chr3	11386449	11386450	1
Deletion	Chr10	11591516	11591527	11
Deletion	Chr10	12529518	12529519	1
Deletion	Chr5	14383035	14383038	3
Deletion	Chr7	14867567	14867569	2	LOC_Os07g25890
Deletion	Chr4	14899188	14899189	1
Deletion	Chr4	14945840	14945847	7	LOC_Os04g25780
Deletion	Chr4	15229488	15229773	285
Deletion	Chr2	15265474	15265476	2
Deletion	Chr11	15324393	15324394	1
Deletion	Chr2	15465192	15465198	6
Deletion	Chr8	15917031	15917032	1
Deletion	Chr4	15985177	15985181	4
Deletion	Chr5	16117011	16117012	1
Deletion	Chr9	16309330	16309339	9
Deletion	Chr7	16583611	16583612	1
Deletion	Chr11	16647167	16647169	2
Deletion	Chr4	17115958	17115976	18
Deletion	Chr10	17410618	17410635	17
Deletion	Chr6	17488651	17488652	1
Deletion	Chr11	17886534	17886537	3
Deletion	Chr8	18275080	18275083	3
Deletion	Chr5	18458916	18458922	6
Deletion	Chr4	19333450	19333457	7
Deletion	Chr12	20268863	20268864	1
Deletion	Chr11	20717113	20717130	17	LOC_Os11g35330
Deletion	Chr3	20731124	20731137	13
Deletion	Chr1	21110813	21110824	11
Deletion	Chr8	21549544	21549557	13
Deletion	Chr9	21843129	21843130	1
Deletion	Chr8	24653182	24653189	7
Deletion	Chr2	25167344	25167346	2	LOC_Os02g41870
Deletion	Chr8	27001411	27001416	5
Deletion	Chr3	28597939	28597940	1
Deletion	Chr4	28755108	28755109	1
Deletion	Chr1	32694761	32694762	1	LOC_Os01g56660
Deletion	Chr2	33961057	33961058	1
Deletion	Chr3	35662876	35662877	1	LOC_Os03g63074
Deletion	Chr3	36167980	36167990	10	LOC_Os03g63990
Deletion	Chr1	40409455	40409458	3	LOC_Os01g69920

Insertions: 9

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	34916658	34916661	4
Insertion	Chr10	248436	248436	1
Insertion	Chr11	4803269	4803270	2
Insertion	Chr2	15620871	15620872	2
Insertion	Chr2	22953697	22953697	1
Insertion	Chr4	7366873	7366873	1
Insertion	Chr6	15986695	15986697	3
Insertion	Chr8	14557562	14557562	1
Insertion	Chr8	3239419	3239420	2

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	21563168	21571556	2

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	5304674	Chr10	4271318
Translocation	Chr4	19893639	Chr1	3561836	2
Translocation	Chr4	19893699	Chr1	3559919	2
Translocation	Chr12	23339555	Chr2	12446081	2
Translocation	Chr12	23339556	Chr2	12442517	2

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