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Mutant Information

Mutant Name	FN729-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN729-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: 27

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	7278628	T-A	HOMO	INTERGENIC
SBS	Chr1	13624563	C-A	HET	INTRON
SBS	Chr1	16874008	G-A	HOMO	STOP_GAINED	LOC_Os01g30936
SBS	Chr2	11717785	G-A	HOMO	INTRON
SBS	Chr2	14807721	C-A	HET	INTRON
SBS	Chr2	19812586	G-A	HET	INTERGENIC
SBS	Chr2	21978201	G-A	HET	SYNONYMOUS_CODING
SBS	Chr3	12315514	T-C	HET	INTERGENIC
SBS	Chr3	12800054	T-C	HET	INTERGENIC
SBS	Chr3	24292049	A-T	HET	INTERGENIC
SBS	Chr4	3862490	C-G	HET	INTERGENIC
SBS	Chr4	4209517	C-T	HET	INTERGENIC
SBS	Chr4	33121279	C-A	HET	INTERGENIC
SBS	Chr5	849990	A-G	HOMO	INTRON
SBS	Chr5	12140692	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os05g20710
SBS	Chr5	20210012	C-T	HOMO	INTERGENIC
SBS	Chr5	26333603	T-C	HOMO	INTERGENIC
SBS	Chr6	8615563	T-G	HET	INTERGENIC
SBS	Chr7	11746506	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os07g20360
SBS	Chr8	1522943	A-G	HET	INTERGENIC
SBS	Chr8	5455164	C-T	HET	INTERGENIC
SBS	Chr8	7049914	G-A	HET	INTERGENIC
SBS	Chr10	6268495	A-C	HET	INTERGENIC
SBS	Chr11	16843137	C-T	HET	INTERGENIC
SBS	Chr11	24654014	T-C	HET	INTERGENIC
SBS	Chr12	1804358	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os12g04260
SBS	Chr12	17957470	T-A	HET	SPLICE_SITE_REGION

Deletions: 17

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	475493	475494	1
Deletion	Chr6	632079	636703	4624	2
Deletion	Chr2	3204640	3204654	14	LOC_Os02g06410
Deletion	Chr3	6425598	6425618	20	LOC_Os03g12236
Deletion	Chr12	8797140	8797142	2	LOC_Os12g15400
Deletion	Chr6	9321662	9321680	18
Deletion	Chr5	10037591	10037592	1	LOC_Os05g17470
Deletion	Chr5	10509568	10509572	4
Deletion	Chr10	12182186	12182220	34	LOC_Os10g23310
Deletion	Chr6	13868397	13868398	1	LOC_Os06g23730
Deletion	Chr11	15902768	15920244	17476	4
Deletion	Chr9	16133249	16133256	7
Deletion	Chr5	19778205	19778206	1	LOC_Os05g33620
Deletion	Chr5	21298110	21298125	15
Deletion	Chr1	30960622	30960632	10
Deletion	Chr4	33471581	33471582	1
Deletion	Chr3	36158302	36158303	1

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	10227563	10227564	2
Insertion	Chr11	24016098	24016099	2
Insertion	Chr11	24365217	24365218	2
Insertion	Chr4	33645500	33645500	1

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	9223520	10151531	LOC_Os11g16630
Inversion	Chr11	9223546	10151547	LOC_Os11g16630
Inversion	Chr12	25839269	26043327	LOC_Os12g41720

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	10482831	Chr4	3613588	LOC_Os04g06850
Translocation	Chr9	13582117	Chr3	10613252
Translocation	Chr9	19846149	Chr1	3185233	2
Translocation	Chr3	29650229	Chr1	22620359	2

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