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Mutant Information

Mutant Name	FN1519-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1519-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000346 (Tiller number) = High (Between 126% and 175%) 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: 39

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13318692	T-A	HET	INTERGENIC
SBS	Chr1	31681385	A-T	Homo	UTR_3_PRIME
SBS	Chr10	9700328	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g19050
SBS	Chr10	9872516	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os10g19338
SBS	Chr11	14164428	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os11g24840
SBS	Chr11	27660284	C-T	HET	INTERGENIC
SBS	Chr11	6106691	T-G	HET	INTERGENIC
SBS	Chr12	10917642	T-A	HET	SYNONYMOUS_CODING
SBS	Chr12	21207814	A-G	HET	INTRON
SBS	Chr12	26806715	A-G	Homo	START_GAINED	LOC_Os12g43165
SBS	Chr12	4732579	C-T	HET	INTRON
SBS	Chr12	6791965	G-A	HET	INTERGENIC
SBS	Chr2	27118368	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g44770
SBS	Chr2	27118369	C-T	HET	SYNONYMOUS_CODING
SBS	Chr2	30941934	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g50650
SBS	Chr2	30941955	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g50650
SBS	Chr2	6959844	T-A	HET	UTR_3_PRIME
SBS	Chr3	4379581	A-T	Homo	INTERGENIC
SBS	Chr4	10143065	G-A	Homo	INTERGENIC
SBS	Chr4	17414566	T-C	HET	INTERGENIC
SBS	Chr4	2125664	T-G	HET	INTERGENIC
SBS	Chr4	22642831	C-T	Homo	INTERGENIC
SBS	Chr4	23294886	T-A	HET	INTRON
SBS	Chr4	2386012	G-T	HET	INTERGENIC
SBS	Chr4	8969313	C-A	HET	INTERGENIC
SBS	Chr5	16367154	A-G	HET	INTERGENIC
SBS	Chr5	21532963	T-C	HET	INTERGENIC
SBS	Chr5	21905254	T-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os05g37434
SBS	Chr5	23858587	A-G	HET	INTERGENIC
SBS	Chr5	3009658	A-T	HET	INTRON
SBS	Chr5	8785786	A-G	HET	INTRON
SBS	Chr6	17306818	A-G	HET	INTERGENIC
SBS	Chr7	19127480	C-A	HET	INTERGENIC
SBS	Chr7	4756704	T-C	Homo	INTRON
SBS	Chr8	10337039	C-T	HET	INTERGENIC
SBS	Chr8	27501621	T-C	HET	INTERGENIC
SBS	Chr8	7598552	A-G	HET	INTERGENIC
SBS	Chr9	8261775	C-T	HET	INTERGENIC
SBS	Chr9	9599487	C-G	HET	INTERGENIC

Deletions: 38

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	1447090	1447096	6	LOC_Os04g03370
Deletion	Chr1	3193320	3193321	1
Deletion	Chr11	4620325	4620326	1
Deletion	Chr11	6107858	6107859	1
Deletion	Chr5	8869962	8869967	5	LOC_Os05g15680
Deletion	Chr1	9191516	9191522	6
Deletion	Chr10	9753750	9753757	7
Deletion	Chr9	10476942	10476945	3
Deletion	Chr5	11841265	11841266	1
Deletion	Chr7	13171706	13171707	1
Deletion	Chr12	13236870	13236884	14
Deletion	Chr10	13563861	13563862	1
Deletion	Chr1	13685502	13685503	1
Deletion	Chr6	14735468	14735479	11
Deletion	Chr10	15584438	15584444	6
Deletion	Chr9	16062107	16062114	7
Deletion	Chr10	16260224	16260226	2
Deletion	Chr10	16535484	16535500	16
Deletion	Chr6	17085439	17085447	8	LOC_Os06g29750
Deletion	Chr10	17406342	17406354	12
Deletion	Chr3	17769952	17769957	5
Deletion	Chr3	18300001	18435000	135000	20
Deletion	Chr1	18969494	18969513	19
Deletion	Chr8	20031698	20031703	5
Deletion	Chr5	21954505	21954522	17
Deletion	Chr5	23438098	23438100	2	LOC_Os05g39890
Deletion	Chr1	25985294	25985296	2
Deletion	Chr8	26315311	26315313	2	LOC_Os08g41690
Deletion	Chr12	27162961	27163028	67
Deletion	Chr6	27347764	27347765	1
Deletion	Chr8	27409831	27409842	11
Deletion	Chr4	27744669	27744677	8
Deletion	Chr4	28386697	28386700	3
Deletion	Chr7	28916743	28916744	1
Deletion	Chr7	28975265	28975266	1
Deletion	Chr3	29352144	29352148	4
Deletion	Chr3	36105554	36105566	12
Deletion	Chr1	37825004	37825010	6

Insertions: 16

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	18619721	18619770	50
Insertion	Chr10	15018748	15018763	16
Insertion	Chr10	2675649	2675680	32
Insertion	Chr10	2778969	2778976	8
Insertion	Chr11	7559858	7559863	6
Insertion	Chr2	15667515	15667530	16
Insertion	Chr2	6394878	6394879	2
Insertion	Chr3	24268347	24268354	8
Insertion	Chr3	26960155	26960156	2
Insertion	Chr3	466208	466209	2	LOC_Os03g01730
Insertion	Chr3	5965993	5966008	16
Insertion	Chr4	16473545	16473549	5	LOC_Os04g27890
Insertion	Chr4	32623545	32623550	6
Insertion	Chr6	2271224	2271235	12
Insertion	Chr8	21911113	21911114	2
Insertion	Chr9	7088190	7088197	8

Inversions: 6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	8632354	9089195	LOC_Os05g15210
Inversion	Chr9	8670909	9230845	LOC_Os09g15200
Inversion	Chr9	8675173	9230846	LOC_Os09g15200
Inversion	Chr11	13281074	13285550	LOC_Os11g23080
Inversion	Chr12	27394412	27445041	LOC_Os12g44160
Inversion	Chr12	27394423	27445054	LOC_Os12g44160

No Translocation

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr8	12129869	12129968	99

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