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Mutant Information

SOS indicates the sequenced line is sterile and seeds from siblings are available.

Mutant Name	FN-289 [Download]
Generation	M2-SOS
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-289 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:0000639 (Seed fertility) = Low (Between 25% and 74%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 28

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	16520981	A-G	HOMO	INTERGENIC
SBS	Chr1	37053060	G-T	HOMO	INTERGENIC
SBS	Chr1	37053063	G-A	HOMO	INTERGENIC
SBS	Chr1	37053064	G-A	HOMO	INTERGENIC
SBS	Chr2	2086172	C-T	HET	INTERGENIC
SBS	Chr2	3584575	C-G	HET	INTERGENIC
SBS	Chr2	7808337	G-A	HET	INTRON
SBS	Chr2	18545042	A-G	HET	INTERGENIC
SBS	Chr2	31414933	T-G	HOMO	INTERGENIC
SBS	Chr3	3288779	C-T	HET	SYNONYMOUS_CODING
SBS	Chr3	19696004	C-T	HOMO	INTRON
SBS	Chr4	35194749	C-T	HOMO	INTERGENIC
SBS	Chr6	19632787	C-T	HOMO	INTERGENIC
SBS	Chr7	4171634	T-G	HET	INTERGENIC
SBS	Chr7	13208220	T-A	HET	INTERGENIC
SBS	Chr7	17276695	C-G	HET	INTERGENIC
SBS	Chr7	23092363	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g38430
SBS	Chr7	26225044	C-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os07g43850
SBS	Chr8	23619058	T-A	HET	INTERGENIC
SBS	Chr9	4180385	T-A	HOMO	INTERGENIC
SBS	Chr9	13756359	C-T	HOMO	INTERGENIC
SBS	Chr11	8957979	T-C	HOMO	INTERGENIC
SBS	Chr11	15533177	T-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g26990
SBS	Chr11	27298090	G-A	HET	INTRON
SBS	Chr12	591618	G-A	HOMO	INTERGENIC
SBS	Chr12	4986628	T-A	HET	INTRON
SBS	Chr12	18910896	A-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g31440
SBS	Chr12	24947538	A-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g40279

Deletions: 16

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr2	1661711	1661716	5
Deletion	Chr12	3815590	3815598	8
Deletion	Chr8	4638304	4638316	12	LOC_Os08g08140
Deletion	Chr9	9783837	9783838	1	LOC_Os09g16010
Deletion	Chr1	13637565	13637567	2
Deletion	Chr8	17331287	17331291	4
Deletion	Chr8	18122360	18122362	2
Deletion	Chr2	18527923	18527952	29	LOC_Os02g31020
Deletion	Chr1	19606615	19606620	5
Deletion	Chr6	20875270	20875271	1
Deletion	Chr8	23146456	23146457	1
Deletion	Chr1	25173629	25173641	12
Deletion	Chr3	27534804	27534805	1
Deletion	Chr8	27814220	27814233	13	LOC_Os08g44180
Deletion	Chr1	28624713	28624714	1
Deletion	Chr5	28705233	28705254	21

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr9	20481962	20481963	2
Insertion	Chr6	24037839	24037842	4
Insertion	Chr11	4878367	4878368	2

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	5772842	17587064
Inversion	Chr8	13880651	13967844	LOC_Os08g23160
Inversion	Chr8	13880881	13967864	LOC_Os08g23160
Inversion	Chr6	14150918	14477215	LOC_Os06g24180

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	13880664	Chr4	24094169	LOC_Os04g40570
Translocation	Chr8	13880867	Chr4	24094201	LOC_Os04g40570
Translocation	Chr12	23636397	Chr5	11204746	2
Translocation	Chr6	29149554	Chr3	27235727	LOC_Os03g47920
Translocation	Chr6	29149555	Chr3	27235728	LOC_Os03g47920

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