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Mutant Information

Mutant Name	FN1388-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1388-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = High (Between 126% and 175%) 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: 20

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	30607821	A-T	HOMO	UTR_3_PRIME
SBS	Chr10	1538107	C-T	HET	INTERGENIC
SBS	Chr11	18121208	C-T	HOMO	INTERGENIC
SBS	Chr11	4028861	T-C	HET	INTRON
SBS	Chr12	12614714	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g22340
SBS	Chr2	14874511	G-A	HET	INTERGENIC
SBS	Chr2	30102944	G-C	HET	INTERGENIC
SBS	Chr3	20727057	T-A	HET	INTRON
SBS	Chr3	22419361	A-T	HET	INTERGENIC
SBS	Chr3	33922763	G-T	HET	INTERGENIC
SBS	Chr3	6898583	A-G	HET	INTERGENIC
SBS	Chr4	33404066	C-T	HET	INTERGENIC
SBS	Chr5	1216803	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g03090
SBS	Chr7	22008288	C-T	HET	INTRON
SBS	Chr7	22867787	G-A	HET	INTERGENIC
SBS	Chr7	7296632	C-T	HOMO	INTERGENIC
SBS	Chr8	11002016	G-A	HOMO	INTERGENIC
SBS	Chr9	10903794	T-G	HET	INTERGENIC
SBS	Chr9	21244241	T-A	HET	INTRON
SBS	Chr9	3903886	C-T	HET	INTERGENIC

Deletions: 21

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	869124	869380	256
Deletion	Chr11	2164001	2234000	70000	9
Deletion	Chr2	3998964	3998967	3	LOC_Os02g07680
Deletion	Chr7	4134972	4134975	3
Deletion	Chr9	6177312	6177318	6
Deletion	Chr12	7255981	7255987	6
Deletion	Chr11	8948877	8948880	3	LOC_Os11g16260
Deletion	Chr10	9187240	9187241	1
Deletion	Chr3	12495966	12495968	2
Deletion	Chr12	14726844	14726857	13
Deletion	Chr7	14887899	14887901	2
Deletion	Chr10	15070001	15070022	21
Deletion	Chr8	15742019	15742038	19
Deletion	Chr8	15950720	15950722	2
Deletion	Chr5	22031796	22031797	1
Deletion	Chr12	22300826	22300830	4
Deletion	Chr1	22660210	22660213	3
Deletion	Chr5	23254298	23254303	5	LOC_Os05g39600
Deletion	Chr1	24196721	24196723	2
Deletion	Chr12	26174749	26174750	1
Deletion	Chr8	28039862	28039878	16

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr6	12208940	12208940	1
Insertion	Chr6	31125907	31125907	1
Insertion	Chr7	14601802	14601802	1
Insertion	Chr9	7878050	7878057	8

No Inversion

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	1277263	Chr1	9985111	LOC_Os11g03380
Translocation	Chr11	11061550	Chr3	1075528	LOC_Os11g19300
Translocation	Chr6	24642107	Chr3	27149878
Translocation	Chr6	24642350	Chr3	27150251

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