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Mutant Information

Mutant Name	FN1499-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1499-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: 40

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	16918863	G-T	HET	INTERGENIC
SBS	Chr1	22555540	C-T	HET	INTERGENIC
SBS	Chr1	6896979	C-T	HET	INTERGENIC
SBS	Chr1	7748317	G-T	HET	INTERGENIC
SBS	Chr10	10952343	A-T	Homo	INTERGENIC
SBS	Chr10	11367829	G-A	HET	SYNONYMOUS_CODING
SBS	Chr10	12362232	G-T	Homo	INTRON
SBS	Chr10	1362316	C-T	HET	INTERGENIC
SBS	Chr10	4491327	A-G	HET	INTERGENIC
SBS	Chr10	7250135	C-A	Homo	INTERGENIC
SBS	Chr10	9921534	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os10g19880
SBS	Chr11	15334701	G-A	HET	INTERGENIC
SBS	Chr11	1685295	T-A	HET	INTRON
SBS	Chr12	14747407	G-A	HET	INTERGENIC
SBS	Chr12	16346209	A-G	HET	INTERGENIC
SBS	Chr12	16649708	G-A	HET	SYNONYMOUS_CODING
SBS	Chr12	22557785	G-A	HET	SYNONYMOUS_CODING
SBS	Chr12	4549966	A-G	HET	INTERGENIC
SBS	Chr2	2308978	A-G	HET	INTERGENIC
SBS	Chr2	29878140	T-C	HET	UTR_5_PRIME
SBS	Chr2	31418643	T-C	HET	INTERGENIC
SBS	Chr2	32450008	T-C	HET	SYNONYMOUS_CODING
SBS	Chr2	33981297	C-G	Homo	INTERGENIC
SBS	Chr2	8427881	G-A	HET	INTERGENIC
SBS	Chr2	9281921	G-A	Homo	INTERGENIC
SBS	Chr3	14943237	C-T	HET	INTERGENIC
SBS	Chr3	26413680	A-T	Homo	INTERGENIC
SBS	Chr3	34698907	G-A	HET	INTERGENIC
SBS	Chr5	1766437	A-T	Homo	INTERGENIC
SBS	Chr5	1974411	G-A	Homo	UTR_3_PRIME
SBS	Chr5	19981432	A-T	Homo	INTERGENIC
SBS	Chr6	11009341	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os06g19350
SBS	Chr6	8074142	T-C	HET	INTERGENIC
SBS	Chr7	4004008	G-A	HET	INTERGENIC
SBS	Chr7	524749	A-C	HET	INTRON
SBS	Chr7	8719071	G-A	HET	INTERGENIC
SBS	Chr8	15130611	A-T	HET	INTERGENIC
SBS	Chr8	18300754	A-T	Homo	INTERGENIC
SBS	Chr9	15222221	A-G	HET	INTERGENIC
SBS	Chr9	20564720	A-T	HET	INTERGENIC

Deletions: 23

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	145849	145878	29
Deletion	Chr2	458933	458934	1	LOC_Os02g01830
Deletion	Chr1	1304854	1304856	2
Deletion	Chr9	3000010	3000016	6
Deletion	Chr1	3761729	3761731	2
Deletion	Chr2	5943281	5943286	5
Deletion	Chr4	6432217	6432234	17
Deletion	Chr7	7451715	7451717	2
Deletion	Chr1	9152909	9152910	1
Deletion	Chr11	10950969	10950970	1
Deletion	Chr7	13616580	13616581	1
Deletion	Chr5	13954113	13954114	1
Deletion	Chr12	14369120	14369140	20
Deletion	Chr2	15744913	15744914	1
Deletion	Chr2	16589453	16589454	1
Deletion	Chr8	18028098	18028108	10	LOC_Os08g29400
Deletion	Chr3	18871754	18871760	6
Deletion	Chr5	20916205	20916208	3
Deletion	Chr6	21634381	21634382	1
Deletion	Chr5	22221429	22221430	1
Deletion	Chr3	22888630	22888631	1
Deletion	Chr12	25078020	25078024	4
Deletion	Chr2	25366344	25366347	3

Insertions: 13

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	2410478	2410553	76
Insertion	Chr1	42466279	42466316	38
Insertion	Chr10	21881493	21881494	2
Insertion	Chr11	19902316	19902317	2
Insertion	Chr11	27829812	27829825	14
Insertion	Chr12	17816234	17816278	45
Insertion	Chr12	20050528	20050528	1
Insertion	Chr12	806220	806220	1
Insertion	Chr3	10751500	10751500	1
Insertion	Chr4	16094265	16094265	1	LOC_Os04g27230
Insertion	Chr4	24731227	24731227	1
Insertion	Chr5	11921199	11921233	35	LOC_Os05g20330
Insertion	Chr6	3999411	3999412	2

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	1361070	1701688	LOC_Os10g03760
Inversion	Chr10	1361086	1701702	LOC_Os10g03760
Inversion	Chr12	16395029	16852517	LOC_Os12g28520
Inversion	Chr4	31706062	32525050	LOC_Os04g54670
Inversion	Chr4	31832092	32015748	2

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	11421412	Chr4	31830991
Translocation	Chr10	11426729	Chr4	31832033	LOC_Os04g53460
Translocation	Chr8	22080307	Chr6	1069092

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