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Mutant Information

Mutant Name	FN908-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN908-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	19202459	C-A	HET	INTERGENIC
SBS	Chr1	22801554	A-G	HET	INTERGENIC
SBS	Chr2	1297544	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g03240
SBS	Chr2	2561566	C-T	HET	INTERGENIC
SBS	Chr2	3405171	C-T	HET	INTRON
SBS	Chr2	5763180	C-A	HET	INTRON
SBS	Chr2	6007229	T-A	HET	INTERGENIC
SBS	Chr2	35471122	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr3	9863238	T-C	HOMO	INTERGENIC
SBS	Chr3	25933139	C-T	HET	INTERGENIC
SBS	Chr4	15193075	A-C	HET	INTERGENIC
SBS	Chr4	27408801	T-A	HET	INTERGENIC
SBS	Chr5	6372663	T-C	HOMO	INTRON
SBS	Chr5	8899875	T-A	HET	INTERGENIC
SBS	Chr5	22894813	C-T	HET	INTERGENIC
SBS	Chr6	5122633	T-A	HOMO	INTERGENIC
SBS	Chr6	5751778	G-A	HOMO	INTERGENIC
SBS	Chr6	15066808	A-G	HET	INTRON
SBS	Chr6	25510673	C-T	HET	INTERGENIC
SBS	Chr7	1065828	A-G	HET	INTERGENIC
SBS	Chr7	4969099	T-A	HET	INTERGENIC
SBS	Chr7	8255422	T-C	HET	INTERGENIC
SBS	Chr7	9189037	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g15820
SBS	Chr7	11126670	A-G	HET	INTERGENIC
SBS	Chr7	12513270	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g22320
SBS	Chr8	469262	C-T	HET	UTR_5_PRIME
SBS	Chr8	14271514	G-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os08g23580
SBS	Chr8	22283208	G-A	HOMO	INTERGENIC
SBS	Chr9	12081052	T-C	HET	INTRON
SBS	Chr9	12339375	C-T	HET	INTERGENIC
SBS	Chr9	17685612	A-G	HET	INTERGENIC
SBS	Chr10	5619500	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os10g10214
SBS	Chr10	18951419	T-G	HET	INTERGENIC
SBS	Chr11	12785857	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g22300
SBS	Chr11	15882963	G-C	HOMO	INTERGENIC
SBS	Chr12	8827318	C-T	HET	INTERGENIC
SBS	Chr12	10034894	G-T	HET	INTERGENIC
SBS	Chr12	11691558	T-C	HET	SYNONYMOUS_CODING
SBS	Chr12	24242495	C-T	HOMO	INTERGENIC

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	4967143	4967158	15
Deletion	Chr10	5499340	5499349	9
Deletion	Chr12	8929046	8929050	4
Deletion	Chr11	9910985	9910992	7
Deletion	Chr12	10217001	10377000	160000	19
Deletion	Chr2	10834001	10985000	151000	27
Deletion	Chr5	12333641	12333651	10
Deletion	Chr3	12923666	12923671	5
Deletion	Chr11	14288030	14288034	4
Deletion	Chr2	18069617	18069665	48	LOC_Os02g30330
Deletion	Chr11	18925736	18925747	11
Deletion	Chr1	19190199	19190203	4
Deletion	Chr2	20087982	20087989	7
Deletion	Chr5	21094726	21094733	7
Deletion	Chr4	22597775	22597787	12
Deletion	Chr10	22923335	22923351	16	LOC_Os10g42500
Deletion	Chr5	27798790	27798791	1
Deletion	Chr4	29263934	29263940	6
Deletion	Chr2	34443828	34443840	12	LOC_Os02g56280

Insertions: 11

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr5	28034317	28034317	1
Insertion	Chr7	3577596	3577596	1
Insertion	Chr11	28794547	28794554	8	LOC_Os11g47730
Insertion	Chr4	12689404	12689407	4
Insertion	Chr1	40468997	40468999	3
Insertion	Chr1	23371282	23371283	2
Insertion	Chr11	7087730	7087731	2
Insertion	Chr7	11319117	11319118	2
Insertion	Chr3	3312217	3312217	1
Insertion	Chr5	8964248	8964248	1
Insertion	Chr8	19998614	19998614	1

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	10985484	25468763	2
Inversion	Chr2	10985651	25468758	2
Inversion	Chr10	19468480	20071150	LOC_Os10g37490
Inversion	Chr1	24058572	24099211

Translocations: 8

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	986533	Chr1	19784968	2
Translocation	Chr11	7098218	Chr4	13318315
Translocation	Chr9	9725009	Chr5	15283670	LOC_Os05g26270
Translocation	Chr7	11905774	Chr4	16178237	LOC_Os04g27380
Translocation	Chr11	14778496	Chr8	985320	LOC_Os08g02460
Translocation	Chr12	16719731	Chr6	13458685
Translocation	Chr3	19872591	Chr2	13897067	LOC_Os02g23970
Translocation	Chr11	21424198	Chr6	14556949	2

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