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Mutant Information

Mutant Name	FN2489 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2489 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	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	976313	C-T	Homo
SBS	Chr1	11702797	C-T	HET
SBS	Chr1	15209941	G-A	HET
SBS	Chr1	17358659	T-C	HET
SBS	Chr1	17906473	G-A	HET
SBS	Chr1	18006079	A-T	HET
SBS	Chr2	3373344	A-C	HET
SBS	Chr2	10394563	G-A	HET
SBS	Chr2	31243834	G-A	HET
SBS	Chr3	2869040	T-C	Homo
SBS	Chr3	9231947	G-T	HET
SBS	Chr3	12927446	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os03g22500
SBS	Chr3	13195664	T-C	HET
SBS	Chr3	19114307	C-A	HET	STOP_GAINED	LOC_Os03g33460
SBS	Chr3	29259595	T-G	HET
SBS	Chr3	32206970	G-T	HET	SPLICE_SITE_ACCEPTOR	LOC_Os03g56530
SBS	Chr4	971878	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g02590
SBS	Chr4	3204424	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os04g06144
SBS	Chr4	18556520	C-A	HET
SBS	Chr5	13929957	T-A	Homo
SBS	Chr5	18850878	G-A	Homo
SBS	Chr5	28878975	C-T	HET
SBS	Chr6	1055924	C-T	HET
SBS	Chr6	1546458	G-A	HET
SBS	Chr6	6094409	G-A	HET
SBS	Chr6	14311430	A-T	HET
SBS	Chr6	26701518	A-T	HET
SBS	Chr6	26703381	C-A	HET
SBS	Chr6	27199442	C-A	HET
SBS	Chr6	27990601	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g46180
SBS	Chr6	28249149	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g46520
SBS	Chr7	12995119	C-T	Homo
SBS	Chr7	27983089	C-T	Homo
SBS	Chr7	28001191	G-T	Homo
SBS	Chr8	7796863	T-A	Homo
SBS	Chr8	13100554	G-T	HET
SBS	Chr9	6157005	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g11100
SBS	Chr9	13846449	A-T	Homo
SBS	Chr10	9116799	C-A	HET
SBS	Chr10	15427780	T-C	HET
SBS	Chr10	15951113	T-A	HET
SBS	Chr11	26115187	A-G	Homo
SBS	Chr12	274250	T-C	HET
SBS	Chr12	16916317	T-A	Homo
SBS	Chr12	16916318	A-G	Homo
SBS	Chr12	27298306	C-T	HET

Deletions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	784847	784852	5
Deletion	Chr1	1653346	1653348	2
Deletion	Chr5	14420321	14420325	4
Deletion	Chr9	16906584	16906586	2
Deletion	Chr6	17684927	17685052	125
Deletion	Chr2	23994293	23994294	1
Deletion	Chr4	25266320	25266321	1
Deletion	Chr7	28010464	28010468	4
Deletion	Chr1	28496001	28518000	21999	5
Deletion	Chr7	28921519	28921520	1
Deletion	Chr4	30422026	30422034	8
Deletion	Chr3	35067950	35067955	5	LOC_Os03g61850

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr2	1705798	1705799	2
Insertion	Chr6	4180736	4180738	3
Insertion	Chr7	8029390	8029396	7
Insertion	Chr8	3016138	3016139	2
Insertion	Chr2	13865272	13865277	6

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	26391833	26727732	2
Inversion	Chr4	28688777	28688915

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	3635096	Chr7	20656067
Translocation	Chr12	11544833	Chr2	16788106	2
Translocation	Chr4	15936932	Chr2	15426389	2
Translocation	Chr9	20408203	Chr3	5235471
Translocation	Chr8	26727738	Chr2	7229124	LOC_Os08g42350
Translocation	Chr8	27804340	Chr2	15724697	2

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