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Mutant Information

Mutant Name	FN560-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN560-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Low (Between 25% and 75%) 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: 15

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr2	8170172	G-A	HOMO	INTERGENIC
SBS	Chr3	9935720	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os03g17840
SBS	Chr3	17350734	G-A	HET	INTERGENIC
SBS	Chr3	19833932	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g35788
SBS	Chr3	28603331	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr5	2573175	G-A	HOMO	INTERGENIC
SBS	Chr5	25562992	A-T	HET	INTERGENIC
SBS	Chr7	1516284	T-G	HOMO	INTERGENIC
SBS	Chr7	10770073	T-C	HOMO	INTRON
SBS	Chr8	28410037	A-G	HOMO	INTERGENIC
SBS	Chr8	28410041	G-T	HOMO	INTERGENIC
SBS	Chr10	996071	G-C	HOMO	INTERGENIC
SBS	Chr10	7954547	A-G	HET	INTRON
SBS	Chr10	14207776	G-A	HET	INTERGENIC
SBS	Chr11	24641994	A-C	HET	INTERGENIC

Deletions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	996825	996832	7
Deletion	Chr3	2597869	2597879	10
Deletion	Chr11	2865567	2865568	1	LOC_Os11g06040
Deletion	Chr10	3478370	3478371	1
Deletion	Chr1	5799582	5799583	1
Deletion	Chr6	7523083	7523086	3
Deletion	Chr3	9868857	9868859	2
Deletion	Chr3	10687333	10687342	9
Deletion	Chr3	11226744	11226764	20
Deletion	Chr10	11287511	11287514	3
Deletion	Chr9	15263786	15263789	3
Deletion	Chr5	15658736	15658747	11
Deletion	Chr9	15955234	15955236	2
Deletion	Chr11	16859001	16897000	38000	5
Deletion	Chr9	18994735	18994747	12	LOC_Os09g31490
Deletion	Chr8	21111216	21111217	1
Deletion	Chr9	21582732	21582738	6	LOC_Os09g37390
Deletion	Chr8	27174435	27174438	3
Deletion	Chr2	28101259	28101260	1
Deletion	Chr5	28413203	28413234	31
Deletion	Chr2	35621254	35621278	24
Deletion	Chr1	37579540	37579543	3

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	22527025	22527027	3
Insertion	Chr1	42357357	42357362	6
Insertion	Chr11	4368782	4368782	1
Insertion	Chr12	8106917	8106917	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	12491107	12906958	LOC_Os10g24380
Inversion	Chr1	18779016	18958946

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	14955729	Chr5	19012731	LOC_Os05g32530
Translocation	Chr12	14956495	Chr5	19012703	LOC_Os05g32530
Translocation	Chr5	27657991	Chr3	9906477	2
Translocation	Chr5	27657999	Chr3	9913645	LOC_Os05g48250

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