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Mutant Information

Mutant Name	FN2278-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2278-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	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: 28

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	24244623	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g42620
SBS	Chr1	26304454	A-G	HET
SBS	Chr1	3955712	A-T	HET
SBS	Chr10	10564467	G-A	Homo
SBS	Chr10	19311907	G-A	HET
SBS	Chr11	2076202	T-C	HET
SBS	Chr2	26707038	A-G	HET
SBS	Chr2	4613166	C-G	HET
SBS	Chr3	13099307	C-T	Homo
SBS	Chr3	15109266	A-G	Homo
SBS	Chr3	25218515	A-T	Homo
SBS	Chr3	26842852	A-G	Homo
SBS	Chr4	1531445	T-C	HET
SBS	Chr4	22824960	G-A	Homo
SBS	Chr4	9691953	A-C	HET
SBS	Chr5	17516806	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os05g30220
SBS	Chr5	20908448	T-G	HET
SBS	Chr5	29430359	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os05g51300
SBS	Chr5	7211891	G-T	HET
SBS	Chr6	23748188	G-A	HET
SBS	Chr6	29462988	T-C	Homo
SBS	Chr6	6212550	G-A	HET
SBS	Chr7	20811284	C-A	HET
SBS	Chr7	23159401	G-A	Homo
SBS	Chr8	4358787	C-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g07774
SBS	Chr8	7170581	C-T	Homo
SBS	Chr9	12304089	G-C	HET
SBS	Chr9	9590529	T-C	HET

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	430804	430805	1
Deletion	Chr7	2471831	2471840	9	LOC_Os07g05390
Deletion	Chr5	5112507	5112508	1
Deletion	Chr1	7536355	7536359	4
Deletion	Chr7	9366664	9366673	9
Deletion	Chr8	10711726	10711730	4	LOC_Os08g17490
Deletion	Chr3	10985709	10985712	3
Deletion	Chr7	11692635	11692643	8
Deletion	Chr7	15774303	15774315	12
Deletion	Chr6	17890376	17890377	1
Deletion	Chr4	19724764	19724765	1	LOC_Os04g32720
Deletion	Chr2	20080836	20080847	11
Deletion	Chr5	21263622	21263633	11
Deletion	Chr7	24571702	24571709	7
Deletion	Chr12	25339001	25361000	21999	5
Deletion	Chr6	30176295	30176325	30
Deletion	Chr1	30668561	30668562	1
Deletion	Chr3	33010359	33010363	4
Deletion	Chr3	33401419	33401421	2

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	26821653	26821654	2
Insertion	Chr12	22229058	22229069	12
Insertion	Chr8	12575994	12575994	1

No Inversion

Translocations: 7

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr3	8414765	Chr2	15466776	LOC_Os03g15380
Translocation	Chr3	8822217	Chr1	3806072	2
Translocation	Chr8	9306289	Chr3	19340951	2
Translocation	Chr11	15308533	Chr6	30259221
Translocation	Chr12	16446401	Chr7	11777249	LOC_Os12g27900
Translocation	Chr6	26913944	Chr3	32828435	2
Translocation	Chr7	29117865	Chr2	23245960	LOC_Os07g48630

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