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Mutant Information

Mutant Name	FN727-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN727-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 29

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	21197418	A-T	HOMO	INTRON
SBS	Chr1	21254395	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g37940
SBS	Chr1	23672359	T-G	HET	INTERGENIC
SBS	Chr1	26164279	T-C	HOMO	INTRON
SBS	Chr2	1557705	G-T	HOMO	INTERGENIC
SBS	Chr2	5995043	T-A	HOMO	INTERGENIC
SBS	Chr2	31306241	G-A	HET	INTRON
SBS	Chr2	31961111	G-A	HET	UTR_5_PRIME
SBS	Chr3	20200402	G-A	HET	INTERGENIC
SBS	Chr3	22018993	T-C	HET	INTRON
SBS	Chr3	22018996	C-A	HET	INTRON
SBS	Chr4	997175	T-C	HOMO	INTERGENIC
SBS	Chr4	11787023	G-T	HOMO	INTRON
SBS	Chr4	24822094	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr4	27415322	C-T	HOMO	INTERGENIC
SBS	Chr4	32294151	G-A	HET	INTERGENIC
SBS	Chr4	33102799	C-T	HET	INTERGENIC
SBS	Chr5	175409	C-A	HET	INTRON
SBS	Chr7	9205525	C-T	HET	INTERGENIC
SBS	Chr7	9520781	T-A	HET	INTERGENIC
SBS	Chr8	2659571	G-C	HOMO	INTRON
SBS	Chr8	8049233	T-A	HOMO	INTERGENIC
SBS	Chr8	12450453	T-C	HOMO	INTRON
SBS	Chr8	12647656	T-C	HOMO	INTRON
SBS	Chr9	1170620	T-A	HET	INTERGENIC
SBS	Chr10	538124	T-A	HOMO	INTERGENIC
SBS	Chr10	6702080	G-T	HOMO	UTR_3_PRIME
SBS	Chr12	2030426	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os12g04770
SBS	Chr12	4011765	C-T	HET	INTERGENIC

Deletions: 25

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr2	5892839	5892842	3
Deletion	Chr1	6041724	6041725	1
Deletion	Chr12	7213773	7213797	24	LOC_Os12g13010
Deletion	Chr6	8335366	8335394	28
Deletion	Chr12	8925564	8925571	7
Deletion	Chr6	9588591	9588600	9
Deletion	Chr11	9771770	9771782	12	LOC_Os11g17530
Deletion	Chr4	10610798	10610815	17
Deletion	Chr4	12455969	12455977	8	LOC_Os04g22000
Deletion	Chr2	13150451	13150459	8
Deletion	Chr8	16206869	16206880	11
Deletion	Chr4	18551794	18551795	1	LOC_Os04g31040
Deletion	Chr3	18698001	19319000	621000	107
Deletion	Chr1	19870684	19870689	5
Deletion	Chr7	21530462	21530467	5
Deletion	Chr1	22345146	22345150	4
Deletion	Chr11	22354080	22354082	2	LOC_Os11g37774
Deletion	Chr11	22392822	22392823	1
Deletion	Chr12	23628769	23628783	14
Deletion	Chr4	24689423	24689432	9
Deletion	Chr1	25969617	25969619	2
Deletion	Chr2	31310001	31384000	74000	8
Deletion	Chr2	32166024	32166027	3
Deletion	Chr4	32401198	32401365	167
Deletion	Chr2	33429105	33429106	1

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr12	7838846	7838855	10
Insertion	Chr1	27335697	27335697	1

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	26439637	27397963	LOC_Os11g43760

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr6	11010267	Chr4	11633867	LOC_Os06g19350
Translocation	Chr9	19723218	Chr1	23364559	LOC_Os01g41290
Translocation	Chr4	32401212	Chr3	7966832
Translocation	Chr4	32401356	Chr3	7959411	LOC_Os03g14642
Translocation	Chr3	34805467	Chr1	17588522	LOC_Os03g61290

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