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Mutant Information

Mutant Name	FN1535-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1535-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Very Low (below 24% compare to WT) TO:0000207 (Plant height) = Short (Between 25% and 74%) TO:0000445 (Seed Number) = Low (Between 25% and 74%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 26

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15268331	T-C	HET	INTERGENIC
SBS	Chr1	5920820	A-T	HET	INTERGENIC
SBS	Chr10	13521887	G-T	HET	INTERGENIC
SBS	Chr10	21726403	A-G	Homo	INTRON
SBS	Chr11	16463578	C-T	Homo	INTERGENIC
SBS	Chr12	3995526	A-G	Homo	INTERGENIC
SBS	Chr2	17723697	G-A	HET	INTRON
SBS	Chr2	2425258	A-G	HET	INTERGENIC
SBS	Chr2	7034771	G-T	HET	UTR_5_PRIME
SBS	Chr2	7034772	C-T	HET	UTR_5_PRIME
SBS	Chr3	28937040	T-C	HET	INTRON
SBS	Chr3	8775183	G-A	HET	INTERGENIC
SBS	Chr4	4991656	A-G	HET	INTERGENIC
SBS	Chr6	1107683	G-A	HET	INTERGENIC
SBS	Chr6	17364138	G-A	Homo	INTERGENIC
SBS	Chr6	29360930	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os06g48530
SBS	Chr6	6083415	T-C	Homo	SYNONYMOUS_CODING
SBS	Chr6	6322916	G-C	Homo	NON_SYNONYMOUS_CODING	LOC_Os06g11890
SBS	Chr7	14122189	C-T	Homo	INTERGENIC
SBS	Chr7	23784384	C-G	HET	INTERGENIC
SBS	Chr7	23857134	A-G	HET	INTERGENIC
SBS	Chr7	27588474	C-A	HET	INTERGENIC
SBS	Chr7	6155330	G-T	HET	INTERGENIC
SBS	Chr8	18375980	A-T	HET	INTERGENIC
SBS	Chr8	18646147	A-G	HET	INTERGENIC
SBS	Chr8	6685630	T-C	HET	INTERGENIC

Deletions: 38

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	1286963	1286966	3
Deletion	Chr3	1372601	1372602	1	LOC_Os03g03230
Deletion	Chr12	2349867	2349909	42
Deletion	Chr12	2624702	2624709	7
Deletion	Chr11	3963541	3963547	6
Deletion	Chr11	4173414	4173424	10
Deletion	Chr1	4442507	4442508	1
Deletion	Chr1	5184622	5184624	2
Deletion	Chr1	5780259	5780263	4
Deletion	Chr11	5785664	5785665	1
Deletion	Chr5	6539473	6539474	1
Deletion	Chr2	9019495	9019496	1
Deletion	Chr2	10414481	10414494	13
Deletion	Chr2	10700062	10700064	2
Deletion	Chr7	11644406	11644409	3
Deletion	Chr5	12129406	12129430	24
Deletion	Chr8	13136268	13136270	2
Deletion	Chr1	14824729	14824730	1
Deletion	Chr7	15319924	15319925	1
Deletion	Chr9	15957609	15957618	9
Deletion	Chr12	17707867	17707868	1
Deletion	Chr8	17783074	17783084	10
Deletion	Chr7	17801947	17801948	1
Deletion	Chr12	17838983	17838993	10
Deletion	Chr7	19130278	19130298	20
Deletion	Chr1	22097925	22097927	2
Deletion	Chr9	22395283	22395284	1
Deletion	Chr10	22809696	22809697	1	LOC_Os10g42364
Deletion	Chr10	22965992	22965997	5
Deletion	Chr8	23758830	23758832	2
Deletion	Chr5	25415392	25415411	19
Deletion	Chr5	25614709	25614710	1
Deletion	Chr5	26575111	26575121	10
Deletion	Chr7	26985001	27022000	37000	6
Deletion	Chr11	28439796	28439956	160
Deletion	Chr6	28639789	28639790	1
Deletion	Chr1	30141712	30141716	4
Deletion	Chr4	31521778	31521779	1

Insertions: 10

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	11186441	11186482	42
Insertion	Chr1	32340874	32340875	2
Insertion	Chr12	24833218	24833218	1
Insertion	Chr12	25726843	25726843	1
Insertion	Chr3	14406883	14406904	22
Insertion	Chr4	174509	174538	30
Insertion	Chr5	11583866	11583868	3
Insertion	Chr5	29411329	29411370	42
Insertion	Chr9	18165013	18165013	1
Insertion	Chr9	6903825	6903825	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	12688119	15611997	LOC_Os05g26890
Inversion	Chr5	15612000	15858304	LOC_Os05g26890

No Translocation

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