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Mutant Information

Mutant Name	FN742-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN742-S 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: 39

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	6679067	A-C	HET	INTERGENIC
SBS	Chr1	10404725	A-G	HET	INTRON
SBS	Chr1	18797630	G-T	HET	INTERGENIC
SBS	Chr1	22516214	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os01g39930
SBS	Chr1	25581159	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os01g45060
SBS	Chr2	9816989	G-A	HET	STOP_GAINED	LOC_Os02g17140
SBS	Chr2	21142359	T-A	HET	INTERGENIC
SBS	Chr2	25070043	G-A	HET	INTERGENIC
SBS	Chr2	26392004	C-T	HET	INTERGENIC
SBS	Chr2	32356005	T-A	HET	INTRON
SBS	Chr2	32356006	C-T	HET	INTRON
SBS	Chr2	32456255	G-A	HET	INTERGENIC
SBS	Chr2	34696279	C-A	HET	INTERGENIC
SBS	Chr3	4066363	C-T	HET	STOP_GAINED	LOC_Os03g07950
SBS	Chr3	7062212	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g13050
SBS	Chr4	2998393	A-G	HET	INTERGENIC
SBS	Chr4	7015641	G-T	HET	INTRON
SBS	Chr4	12920825	C-A	HET	INTERGENIC
SBS	Chr4	21256962	T-A	HET	INTERGENIC
SBS	Chr5	22285936	A-T	HET	INTERGENIC
SBS	Chr5	22658402	T-C	HET	INTERGENIC
SBS	Chr6	24898795	A-G	HET	INTERGENIC
SBS	Chr6	25569311	T-A	HET	INTERGENIC
SBS	Chr7	5988991	C-T	HOMO	INTRON
SBS	Chr7	16545722	C-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os07g28340
SBS	Chr7	18072989	G-C	HOMO	INTERGENIC
SBS	Chr7	18226425	G-A	HOMO	INTRON
SBS	Chr8	4943306	G-A	HET	INTRON
SBS	Chr8	6880636	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g11730
SBS	Chr8	7581533	A-T	HET	INTERGENIC
SBS	Chr8	11454693	C-T	HET	INTERGENIC
SBS	Chr8	17486232	A-G	HET	INTERGENIC
SBS	Chr9	14992237	A-G	HOMO	INTERGENIC
SBS	Chr10	6309330	C-T	HOMO	SPLICE_SITE_REGION
SBS	Chr11	10486420	G-A	HET	INTERGENIC
SBS	Chr11	11179822	G-A	HOMO	INTERGENIC
SBS	Chr11	13451842	C-A	HET	INTRON
SBS	Chr11	15413831	G-T	HET	INTERGENIC
SBS	Chr11	18310426	A-G	HET	INTERGENIC

Deletions: 26

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	1373508	1373509	1
Deletion	Chr6	2814585	2814587	2
Deletion	Chr5	3081148	3081149	1
Deletion	Chr9	4673546	4673548	2
Deletion	Chr4	4976275	4976299	24	LOC_Os04g09360
Deletion	Chr3	5900487	5900496	9	LOC_Os03g11450
Deletion	Chr4	7252893	7252897	4
Deletion	Chr2	7507724	7507725	1	LOC_Os02g13850
Deletion	Chr10	8413182	8413187	5	LOC_Os10g16880
Deletion	Chr2	9925716	9925721	5
Deletion	Chr11	12582328	12582332	4
Deletion	Chr11	14429968	14429971	3
Deletion	Chr12	17331898	17331971	73
Deletion	Chr10	17966063	17966075	12	LOC_Os10g33850
Deletion	Chr3	21356167	21356170	3
Deletion	Chr6	24643930	24643948	18
Deletion	Chr6	24647352	24647353	1
Deletion	Chr5	24988050	24988549	499	LOC_Os05g43030
Deletion	Chr6	25499839	25499842	3
Deletion	Chr2	25923001	25972000	49000	8
Deletion	Chr8	26848524	26848532	8
Deletion	Chr2	27903695	27903698	3
Deletion	Chr3	32309854	32309855	1
Deletion	Chr2	32730001	32806000	76000	11
Deletion	Chr1	40741357	40741360	3
Deletion	Chr1	42911892	42911895	3

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	23208034	23208036	3
Insertion	Chr7	4124573	4124574	2
Insertion	Chr9	10407045	10407046	2
Insertion	Chr5	20270791	20270791	1

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	2219329	2449993	2
Inversion	Chr12	2223965	2450012	LOC_Os12g05410
Inversion	Chr4	4478005	20345712
Inversion	Chr10	18921378	19485347

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr2	4305744	Chr1	10716869	LOC_Os02g08130
Translocation	Chr10	15151414	Chr5	26317333	LOC_Os10g29090
Translocation	Chr5	24988168	Chr2	4305748	2
Translocation	Chr5	24988541	Chr1	10717420	LOC_Os05g43030

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