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Mutant Information

Mutant Name	FN1375-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1375-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: 48

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	30545214	T-C	HET	INTERGENIC
SBS	Chr1	39828384	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr1	9934064	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g17260
SBS	Chr10	16391620	C-G	HET	INTRON
SBS	Chr10	7944190	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g15150
SBS	Chr11	17807847	C-T	HET	INTERGENIC
SBS	Chr11	662654	C-A	HOMO	INTERGENIC
SBS	Chr12	11949264	G-T	HET	INTERGENIC
SBS	Chr12	15963108	T-A	HET	INTRON
SBS	Chr12	1617649	T-G	HET	INTRON
SBS	Chr12	19170258	G-T	HET	INTERGENIC
SBS	Chr12	2476959	C-T	HET	INTERGENIC
SBS	Chr12	2558077	C-A	HET	INTRON
SBS	Chr12	26658657	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os12g42884
SBS	Chr2	13758162	C-A	HET	INTERGENIC
SBS	Chr2	19007678	T-A	HET	INTERGENIC
SBS	Chr2	7974884	T-C	HET	INTERGENIC
SBS	Chr3	7304193	A-T	HOMO	INTERGENIC
SBS	Chr4	14782207	T-C	HET	INTERGENIC
SBS	Chr4	17356532	G-T	HOMO	INTERGENIC
SBS	Chr4	23944532	G-T	HET	SYNONYMOUS_CODING
SBS	Chr4	2519853	C-G	HET	INTERGENIC
SBS	Chr4	33451752	G-A	HOMO	INTERGENIC
SBS	Chr4	33451753	C-A	HOMO	INTERGENIC
SBS	Chr5	12249940	A-G	HET	INTERGENIC
SBS	Chr5	26971458	A-G	HOMO	INTERGENIC
SBS	Chr5	27600147	G-A	HET	INTERGENIC
SBS	Chr5	29197817	T-G	HOMO	INTERGENIC
SBS	Chr5	29304999	A-T	HOMO	INTERGENIC
SBS	Chr5	29335102	T-C	HOMO	INTERGENIC
SBS	Chr5	4074026	T-A	HOMO	INTERGENIC
SBS	Chr6	14589792	A-T	HET	UTR_3_PRIME
SBS	Chr6	15797899	G-A	HET	INTERGENIC
SBS	Chr6	22522070	G-A	HET	INTERGENIC
SBS	Chr6	6430180	G-A	HET	INTERGENIC
SBS	Chr7	2044935	T-C	HET	INTERGENIC
SBS	Chr7	24587982	G-T	HET	INTERGENIC
SBS	Chr8	18053872	C-T	HOMO	INTERGENIC
SBS	Chr8	18909122	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr8	19865365	T-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os08g32020
SBS	Chr8	27177	T-C	HET	INTRON
SBS	Chr9	10907914	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g17830
SBS	Chr9	20380044	G-A	HOMO	INTRON
SBS	Chr9	20895511	A-C	HOMO	SYNONYMOUS_CODING
SBS	Chr9	21950799	T-A	HET	INTRON
SBS	Chr9	3533461	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g07220
SBS	Chr9	7851872	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os09g13540
SBS	Chr9	9247880	T-A	HET	INTERGENIC

Deletions: 23

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	2459928	2459929	1
Deletion	Chr2	3072332	3072337	5	LOC_Os02g06150
Deletion	Chr10	3567038	3567044	6	LOC_Os10g06830
Deletion	Chr4	5050001	5098000	48000	8
Deletion	Chr11	5650483	5650485	2
Deletion	Chr1	7815001	7844000	29000	5
Deletion	Chr2	9237127	9237130	3	LOC_Os02g16240
Deletion	Chr6	11542261	11542264	3
Deletion	Chr2	12603619	12603624	5
Deletion	Chr12	14855491	14855494	3
Deletion	Chr6	14883013	14883014	1
Deletion	Chr5	14889701	14889736	35	LOC_Os05g25610
Deletion	Chr12	16764341	16764342	1
Deletion	Chr3	17087486	17087488	2
Deletion	Chr10	17671260	17671263	3
Deletion	Chr2	21043405	21043411	6
Deletion	Chr8	21354304	21354308	4	LOC_Os08g34060
Deletion	Chr12	22757825	22757826	1
Deletion	Chr8	25027577	25027579	2
Deletion	Chr6	26351432	26351433	1
Deletion	Chr4	28031005	28031009	4
Deletion	Chr3	33257244	33257251	7
Deletion	Chr4	34452994	34454745	1751	LOC_Os04g57860

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	19576681	19576683	3
Insertion	Chr11	28862757	28862759	3
Insertion	Chr2	18588040	18588050	11
Insertion	Chr6	31029553	31029554	2
Insertion	Chr6	6325966	6325971	6
Insertion	Chr9	12624213	12624214	2

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	11648270	11739624	LOC_Os02g19950
Inversion	Chr2	14291820	14306525	LOC_Os02g24660
Inversion	Chr2	21126154	21233038
Inversion	Chr6	30866796	31084038	2

Translocations: 8

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	4925773	Chr5	19143982
Translocation	Chr9	8410983	Chr1	7845587
Translocation	Chr9	8411259	Chr1	7814831	LOC_Os09g14220
Translocation	Chr3	14481022	Chr1	7844566	2
Translocation	Chr3	14481023	Chr1	7845535	LOC_Os03g25340
Translocation	Chr7	24229874	Chr3	25519413	2
Translocation	Chr6	30866804	Chr4	34452996	2
Translocation	Chr6	31084046	Chr4	34454801	LOC_Os06g51320

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