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Mutant Information

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

Mutant Name	FN1465-S [Download]
Generation	M2-SOS
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1465-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) = Normal (Between 75% and 125%) 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: 45

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4901694	C-T	HOMO	INTERGENIC
SBS	Chr1	15013902	T-A	HET	INTERGENIC
SBS	Chr1	15043653	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os01g27000
SBS	Chr1	15091786	G-A	HET	INTERGENIC
SBS	Chr1	24777146	G-T	HET	INTRON
SBS	Chr1	24777147	C-T	HET	INTRON
SBS	Chr1	26118141	A-G	HET	INTERGENIC
SBS	Chr1	33616785	A-T	HOMO	INTERGENIC
SBS	Chr2	5464946	T-A	HET	INTERGENIC
SBS	Chr2	16147394	G-C	HET	INTERGENIC
SBS	Chr2	19056001	A-G	HET	INTERGENIC
SBS	Chr2	26566230	G-A	HET	INTERGENIC
SBS	Chr3	8837930	A-G	HET	INTERGENIC
SBS	Chr3	13319229	A-C	HOMO	INTERGENIC
SBS	Chr3	16196949	C-T	HET	INTERGENIC
SBS	Chr3	28484654	A-C	HOMO	INTERGENIC
SBS	Chr3	32820063	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g57560
SBS	Chr3	34056990	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g59810
SBS	Chr4	5465355	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os04g10120
SBS	Chr4	6128810	G-A	HET	INTERGENIC
SBS	Chr4	9803328	C-T	HET	INTERGENIC
SBS	Chr4	26499871	T-C	HET	INTRON
SBS	Chr5	5497616	G-A	HET	INTERGENIC
SBS	Chr5	7414067	G-A	HET	INTERGENIC
SBS	Chr5	15859551	G-A	HET	INTERGENIC
SBS	Chr5	19584214	C-T	HET	INTRON
SBS	Chr5	21097751	T-G	HET	INTERGENIC
SBS	Chr5	29544141	G-A	HET	INTERGENIC
SBS	Chr6	14029510	C-T	HET	INTERGENIC
SBS	Chr6	23709709	C-T	HET	INTERGENIC
SBS	Chr7	482629	T-C	HET	INTERGENIC
SBS	Chr8	2314298	T-A	HOMO	INTRON
SBS	Chr8	11444079	C-A	HET	SPLICE_SITE_DONOR	LOC_Os08g19140
SBS	Chr9	8994836	C-A	HET	INTRON
SBS	Chr9	10049063	G-C	HET	INTRON
SBS	Chr9	13395112	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g22110
SBS	Chr9	14334949	G-A	HET	INTERGENIC
SBS	Chr9	21181759	G-A	HET	INTERGENIC
SBS	Chr10	6444401	A-G	HET	SYNONYMOUS_CODING
SBS	Chr10	12742643	T-A	HET	INTERGENIC
SBS	Chr10	21978919	C-G	HET	INTERGENIC
SBS	Chr11	6333496	A-G	HET	INTERGENIC
SBS	Chr12	14316328	C-A	HET	INTERGENIC
SBS	Chr12	14362123	T-C	HET	SYNONYMOUS_CODING
SBS	Chr12	19722547	C-G	HET	INTERGENIC

Deletions: 26

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	302038	302043	5
Deletion	Chr1	2836433	2836438	5
Deletion	Chr7	3230394	3230402	8
Deletion	Chr12	3492068	3492069	1
Deletion	Chr5	5675447	5675464	17
Deletion	Chr2	7415313	7415316	3
Deletion	Chr5	7441298	7441306	8
Deletion	Chr6	9804141	9804142	1
Deletion	Chr7	10725115	10725120	5
Deletion	Chr1	10942777	10942778	1
Deletion	Chr9	14634115	14634129	14
Deletion	Chr6	15663514	15663517	3	LOC_Os06g27670
Deletion	Chr5	15780377	15780385	8
Deletion	Chr4	16877001	16920000	43000	8
Deletion	Chr12	17003899	17003914	15
Deletion	Chr12	19259001	19412000	153000	18
Deletion	Chr9	19281977	19281978	1	LOC_Os09g32300
Deletion	Chr3	20381855	20381859	4
Deletion	Chr9	21251499	21254898	3399	2
Deletion	Chr12	21496542	21496546	4
Deletion	Chr1	22876377	22876390	13
Deletion	Chr2	22974326	22974335	9	LOC_Os02g38020
Deletion	Chr2	24077704	24077705	1
Deletion	Chr1	31469217	31469220	3	LOC_Os01g54690
Deletion	Chr1	33850205	33850216	11
Deletion	Chr3	36238248	36238259	11

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr2	17454917	17454918	2	LOC_Os02g29380
Insertion	Chr8	16317113	16317114	2

Inversions: 9

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	2307371	21254756	LOC_Os09g36860
Inversion	Chr4	14567909	16358136
Inversion	Chr4	14831676	16358138
Inversion	Chr4	15025394	15308806
Inversion	Chr4	16802671	18199471	LOC_Os04g30460
Inversion	Chr12	19258791	19723049
Inversion	Chr9	20580128	21600066	LOC_Os09g37460
Inversion	Chr4	25825741	25900872	LOC_Os04g43750
Inversion	Chr4	25825921	25900885	LOC_Os04g43750

Translocations: 10

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr3	5096222	Chr2	3121941
Translocation	Chr9	10777851	Chr4	18199428	LOC_Os04g30460
Translocation	Chr12	19411968	Chr7	4175504	LOC_Os07g08190
Translocation	Chr12	19723054	Chr7	4176983	LOC_Os07g08190
Translocation	Chr9	21600086	Chr1	38693046	LOC_Os09g37460
Translocation	Chr9	21600238	Chr7	10718447	2
Translocation	Chr9	21601610	Chr7	10718442	2
Translocation	Chr4	25825750	Chr3	24458216	LOC_Os03g43730
Translocation	Chr4	25825895	Chr3	24458213	LOC_Os03g43730
Translocation	Chr4	31353243	Chr2	32187635

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