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Mutant Information

Mutant Name	FN2116-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2116-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: 39

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	36897792	C-T	HET
SBS	Chr1	42905345	C-G	Homo
SBS	Chr1	4725323	A-C	Homo
SBS	Chr10	1140981	A-T	HET
SBS	Chr10	1769930	C-A	HET
SBS	Chr10	18941317	C-T	Homo
SBS	Chr10	4600789	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os10g08474
SBS	Chr10	7904602	C-T	HET
SBS	Chr11	11783719	C-T	HET
SBS	Chr11	13433366	T-A	Homo
SBS	Chr11	16885490	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os11g29130
SBS	Chr11	17979154	T-C	Homo
SBS	Chr11	28708135	A-C	HET
SBS	Chr12	16230328	C-T	HET
SBS	Chr12	1898014	C-T	Homo
SBS	Chr12	21003017	C-T	HET
SBS	Chr2	10052872	G-A	Homo
SBS	Chr3	24164899	A-T	HET
SBS	Chr4	12719547	G-A	HET
SBS	Chr4	26105651	A-T	HET
SBS	Chr4	26105652	A-T	HET
SBS	Chr4	26105653	C-T	HET
SBS	Chr4	34985371	C-T	Homo
SBS	Chr4	8100520	G-A	HET
SBS	Chr5	14407123	G-T	HET
SBS	Chr5	20610987	A-C	Homo
SBS	Chr5	22791656	G-A	Homo
SBS	Chr5	7609443	C-T	HET
SBS	Chr6	9689729	G-A	HET
SBS	Chr7	11936945	G-A	HET
SBS	Chr7	27828973	G-T	HET
SBS	Chr7	3841737	T-A	HET
SBS	Chr8	1065214	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os08g02570
SBS	Chr8	19543893	C-T	HET
SBS	Chr8	4898574	T-G	HET
SBS	Chr8	9160818	G-A	HET
SBS	Chr8	9160835	G-A	HET
SBS	Chr8	9873997	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g16190
SBS	Chr9	7777200	C-T	HET

Deletions: 15

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	1092390	1092391	1
Deletion	Chr1	1101112	1101116	4
Deletion	Chr4	4484001	4745000	260999	34
Deletion	Chr11	4780578	4780581	3	LOC_Os11g09000
Deletion	Chr7	4995001	5005000	9999	3
Deletion	Chr5	7603789	7603791	2	LOC_Os05g13730
Deletion	Chr9	12273381	12273385	4
Deletion	Chr3	17368645	17368650	5
Deletion	Chr3	17458262	17458271	9
Deletion	Chr6	19961727	19961739	12
Deletion	Chr5	21352350	21352354	4
Deletion	Chr4	27892221	27892229	8
Deletion	Chr6	29555843	29555845	2
Deletion	Chr4	33374096	33374110	14
Deletion	Chr1	42615718	42615719	1	LOC_Os01g73550

Insertions: 10

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr10	15621383	15621384	2
Insertion	Chr10	18986169	18986169	1
Insertion	Chr10	3205060	3205062	3
Insertion	Chr11	22925995	22925996	2
Insertion	Chr12	6752423	6752423	1
Insertion	Chr4	13773155	13773158	4
Insertion	Chr4	31354237	31354237	1
Insertion	Chr5	24181664	24181666	3
Insertion	Chr6	16450784	16450838	55	LOC_Os06g28850
Insertion	Chr7	14449539	14449541	3

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	5391942	5407882
Inversion	Chr11	5391956	5407906
Inversion	Chr8	20889108	21533455	2
Inversion	Chr8	20889111	21533455	2

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	7315223	Chr6	18384318	2

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