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Mutant Information

Mutant Name	FN1043-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1043-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: 19

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1905070	A-T	HET	UTR_3_PRIME
SBS	Chr1	40467852	G-A	HOMO	INTERGENIC
SBS	Chr10	11447268	G-A	HET	INTERGENIC
SBS	Chr11	10667584	G-A	HET	STOP_GAINED	LOC_Os11g18790
SBS	Chr11	7249066	A-C	HET	INTERGENIC
SBS	Chr12	21458992	T-C	HET	INTRON
SBS	Chr2	15012017	A-G	HOMO	INTERGENIC
SBS	Chr2	2086172	C-T	HET	INTERGENIC
SBS	Chr2	3532015	A-G	HET	INTERGENIC
SBS	Chr3	19696004	C-T	HOMO	INTRON
SBS	Chr5	28808754	T-A	HOMO	INTERGENIC
SBS	Chr5	550717	G-A	HOMO	INTERGENIC
SBS	Chr6	21031895	C-T	HOMO	INTERGENIC
SBS	Chr7	5059871	C-T	HOMO	INTERGENIC
SBS	Chr8	14966672	T-C	HOMO	INTERGENIC
SBS	Chr9	4651459	C-T	HOMO	INTRON
SBS	Chr9	6063978	G-A	HET	INTRON
SBS	Chr9	9236679	G-C	HOMO	INTERGENIC
SBS	Chr9	941791	A-T	HET	INTERGENIC

Deletions: 13

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	795124	795131	7	LOC_Os10g02250
Deletion	Chr5	997540	997541	1	LOC_Os05g02770
Deletion	Chr8	5731291	5731296	5
Deletion	Chr6	7998467	7998470	3
Deletion	Chr11	9770926	9770928	2	LOC_Os11g17530
Deletion	Chr5	11894141	11894144	3
Deletion	Chr12	19874248	19874252	4
Deletion	Chr2	22708437	22708440	3
Deletion	Chr8	24715001	24729000	14000	4
Deletion	Chr8	24949001	24972000	23000	3
Deletion	Chr5	28725001	28750000	25000	6
Deletion	Chr4	30317110	30317111	1
Deletion	Chr1	33863510	33863513	3

No Insertion

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	24669216	24715785
Inversion	Chr8	24669231	24729700	LOC_Os08g39150
Inversion	Chr5	28669258	28724982	LOC_Os05g50120

No Translocation