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Mutant Information

Mutant Name	FN1477-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1477-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: 34

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	22124108	G-A	HET	SYNONYMOUS_CODING
SBS	Chr1	24507212	G-A	HET	INTERGENIC
SBS	Chr1	26571718	G-C	HET	INTRON
SBS	Chr1	334586	G-C	HET	INTERGENIC
SBS	Chr1	42052750	T-G	Homo	INTERGENIC
SBS	Chr10	17579370	G-A	HET	INTERGENIC
SBS	Chr10	3023243	C-A	HET	INTERGENIC
SBS	Chr10	5500939	G-A	HET	INTERGENIC
SBS	Chr11	24681104	C-T	HET	INTERGENIC
SBS	Chr12	11863417	A-T	HET	INTRON
SBS	Chr12	19201403	A-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os12g31880
SBS	Chr12	7205890	C-A	HET	INTERGENIC
SBS	Chr2	12497959	G-A	HET	INTERGENIC
SBS	Chr2	2044212	C-A	Homo	INTERGENIC
SBS	Chr3	1131803	A-T	HET	UTR_3_PRIME
SBS	Chr3	13370559	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g23120
SBS	Chr3	13809827	T-A	HET	INTERGENIC
SBS	Chr3	31863571	A-G	HET	INTERGENIC
SBS	Chr3	3696708	G-A	HET	UTR_5_PRIME
SBS	Chr4	11117085	C-T	HET	SYNONYMOUS_CODING
SBS	Chr4	14622081	T-G	HET	INTERGENIC
SBS	Chr4	26187380	G-A	HET	INTERGENIC
SBS	Chr4	3906719	C-T	HET	SYNONYMOUS_CODING
SBS	Chr6	10285990	T-C	HET	SYNONYMOUS_CODING
SBS	Chr6	12524160	A-T	HET	INTERGENIC
SBS	Chr6	19695267	C-G	HET	INTERGENIC
SBS	Chr7	28349841	G-A	HET	SYNONYMOUS_CODING
SBS	Chr7	9254972	A-G	HET	INTRON
SBS	Chr7	9663993	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os07g16490
SBS	Chr8	13046817	C-T	HET	INTERGENIC
SBS	Chr8	17414417	G-A	HET	INTERGENIC
SBS	Chr8	2656931	T-G	Homo	INTERGENIC
SBS	Chr8	8727974	C-T	HET	INTERGENIC
SBS	Chr9	8212198	A-G	HET	INTERGENIC

Deletions: 41

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr2	47109	47110	1
Deletion	Chr7	427694	427695	1	LOC_Os07g01710
Deletion	Chr7	1431570	1431572	2
Deletion	Chr10	1519144	1519454	310
Deletion	Chr10	2402062	2402065	3
Deletion	Chr10	4069573	4069579	6
Deletion	Chr9	4349164	4349165	1
Deletion	Chr12	5668416	5668418	2
Deletion	Chr2	6352472	6352474	2
Deletion	Chr1	6400198	6400206	8
Deletion	Chr11	7286199	7286200	1
Deletion	Chr10	7448387	7448405	18
Deletion	Chr9	7691761	7691795	34
Deletion	Chr2	7855001	7916000	61000	11
Deletion	Chr3	7943470	7943472	2
Deletion	Chr7	10101396	10101397	1
Deletion	Chr1	10252588	10252830	242
Deletion	Chr7	10683086	10683087	1	LOC_Os07g18050
Deletion	Chr9	11201987	11201993	6	LOC_Os09g18250
Deletion	Chr7	11222425	11222426	1	LOC_Os07g18944
Deletion	Chr12	11499010	11499031	21
Deletion	Chr10	11565194	11565199	5
Deletion	Chr5	11995520	11995530	10
Deletion	Chr11	12058162	12058196	34
Deletion	Chr4	13854628	13854649	21
Deletion	Chr3	14665187	14665188	1
Deletion	Chr9	16323601	16323608	7
Deletion	Chr2	16463751	16463803	52
Deletion	Chr5	17465211	17465213	2
Deletion	Chr8	18386255	18386256	1	LOC_Os08g29930
Deletion	Chr6	22262829	22262830	1
Deletion	Chr3	22468508	22468573	65
Deletion	Chr5	24448166	24448167	1
Deletion	Chr12	24525783	24525805	22
Deletion	Chr2	25204499	25204500	1
Deletion	Chr8	25436797	25436807	10
Deletion	Chr2	25567677	25567678	1
Deletion	Chr6	25662514	25662515	1
Deletion	Chr4	26648657	26648700	43
Deletion	Chr5	26970125	26970130	5
Deletion	Chr4	29500341	29500359	18	LOC_Os04g49440

Insertions: 13

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr10	13451873	13451911	39
Insertion	Chr10	2319935	2319992	58
Insertion	Chr11	19039861	19039862	2
Insertion	Chr11	8175197	8175202	6
Insertion	Chr12	15516369	15516374	6
Insertion	Chr2	11122890	11122890	1
Insertion	Chr3	4927812	4927813	2
Insertion	Chr4	5877581	5877581	1
Insertion	Chr5	15720961	15720961	1
Insertion	Chr7	12809230	12809232	3
Insertion	Chr7	3937122	3937123	2
Insertion	Chr7	9206457	9206457	1
Insertion	Chr8	18164358	18164359	2

Inversions: 6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	6641078	6655885
Inversion	Chr2	7690952	8540748	LOC_Os02g14090
Inversion	Chr2	7854849	8540747
Inversion	Chr2	7915543	7926291	LOC_Os02g14410
Inversion	Chr1	20459422	22117876
Inversion	Chr5	24965409	25059780

No Translocation

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