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Mutant Information

Mutant Name	FN1400-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1400-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) = High (Between 126% and 175%) 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: 31

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12753756	G-A	HOMO	INTERGENIC
SBS	Chr1	14652985	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g25839
SBS	Chr1	22945262	C-T	HET	INTERGENIC
SBS	Chr1	25460751	C-A	HET	INTERGENIC
SBS	Chr1	25460758	G-T	HET	INTERGENIC
SBS	Chr2	14449446	G-A	HOMO	INTERGENIC
SBS	Chr2	27589543	A-G	HET	INTERGENIC
SBS	Chr2	30794328	A-G	HET	INTRON
SBS	Chr2	32190580	A-G	HET	INTERGENIC
SBS	Chr2	34808416	C-T	HET	INTERGENIC
SBS	Chr3	15958139	G-T	HOMO	INTERGENIC
SBS	Chr3	15958140	G-T	HOMO	INTERGENIC
SBS	Chr5	15261862	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os05g26230
SBS	Chr5	16122380	C-A	HET	INTERGENIC
SBS	Chr7	487132	C-A	HET	INTERGENIC
SBS	Chr7	13483217	C-T	HET	INTRON
SBS	Chr8	15214874	C-T	HET	INTERGENIC
SBS	Chr8	15560782	A-T	HET	INTERGENIC
SBS	Chr8	15560784	G-T	HET	INTERGENIC
SBS	Chr9	17071614	T-C	HOMO	INTERGENIC
SBS	Chr10	12526997	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g24420
SBS	Chr10	13397231	C-A	HOMO	INTRON
SBS	Chr10	16911998	C-T	HET	INTERGENIC
SBS	Chr10	19612987	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr11	3326429	C-T	HET	INTERGENIC
SBS	Chr11	8353401	C-A	HOMO	INTERGENIC
SBS	Chr11	20818481	G-A	HET	INTERGENIC
SBS	Chr12	6536098	G-T	HOMO	INTERGENIC
SBS	Chr12	16074869	C-T	HET	SYNONYMOUS_CODING
SBS	Chr12	16074874	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os12g27340
SBS	Chr12	16420866	G-A	HET	INTERGENIC

Deletions: 18

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	1177094	1177126	32
Deletion	Chr4	8776736	8776739	3
Deletion	Chr3	9511106	9511110	4
Deletion	Chr3	11477093	11477096	3	LOC_Os03g20310
Deletion	Chr10	12047264	12047267	3
Deletion	Chr8	12601291	12601683	392
Deletion	Chr12	13182091	13182123	32
Deletion	Chr8	15522332	15522354	22
Deletion	Chr8	15552590	15552972	382
Deletion	Chr10	21251563	21251564	1
Deletion	Chr3	21730994	21730999	5	LOC_Os03g39110
Deletion	Chr8	22266392	22266393	1
Deletion	Chr8	22376001	22483000	107000	14
Deletion	Chr1	26127094	26127095	1
Deletion	Chr4	27529271	27529272	1
Deletion	Chr2	30839721	30839722	1	LOC_Os02g50490
Deletion	Chr2	32968024	32968031	7	LOC_Os02g53830
Deletion	Chr2	33515246	33515256	10

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	9878278	9878279	2
Insertion	Chr9	2724821	2724822	2
Insertion	Chr12	17835352	17835355	4
Insertion	Chr11	11101116	11101122	7
Insertion	Chr5	3640669	3640670	2

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	6305049	7429675	2

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	4539311	Chr8	15552597	LOC_Os09g08660
Translocation	Chr8	12601296	Chr3	35468154	LOC_Os03g62670
Translocation	Chr12	20934095	Chr2	10798325

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