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Mutant Information

Mutant Name	FN1520-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1520-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: 51

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1021042	C-T	HET	INTERGENIC
SBS	Chr1	10687892	C-A	HET	INTERGENIC
SBS	Chr1	21579724	G-A	Homo	INTERGENIC
SBS	Chr1	5742858	G-A	HET	INTERGENIC
SBS	Chr1	7011799	T-C	HET	INTERGENIC
SBS	Chr10	16619948	G-T	HET	INTERGENIC
SBS	Chr10	23136211	G-A	HET	INTRON
SBS	Chr10	3913792	C-T	HET	INTERGENIC
SBS	Chr11	10099862	A-T	HET	INTRON
SBS	Chr11	18849627	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os11g31990
SBS	Chr11	19162602	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os11g32460
SBS	Chr11	19323632	G-A	Homo	INTERGENIC
SBS	Chr11	2640177	G-C	HET	INTERGENIC
SBS	Chr11	4891997	A-G	HET	INTERGENIC
SBS	Chr11	9520059	T-C	HET	INTERGENIC
SBS	Chr11	9520065	G-A	HET	INTERGENIC
SBS	Chr12	14513032	A-T	HET	INTERGENIC
SBS	Chr12	14886789	G-C	HET	INTERGENIC
SBS	Chr12	16120308	G-A	HET	INTERGENIC
SBS	Chr12	17686052	G-C	HET	SPLICE_SITE_REGION
SBS	Chr12	24075311	A-C	HET	INTERGENIC
SBS	Chr12	24123683	G-A	Homo	UTR_5_PRIME
SBS	Chr12	24123684	G-A	Homo	UTR_5_PRIME
SBS	Chr12	2943371	A-G	Homo	INTRON
SBS	Chr12	6589764	G-A	HET	INTERGENIC
SBS	Chr2	12443646	G-T	HET	INTRON
SBS	Chr2	15458467	A-G	HET	INTERGENIC
SBS	Chr2	17154389	C-T	HET	INTERGENIC
SBS	Chr3	20936229	G-T	HET	INTERGENIC
SBS	Chr3	22911816	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os03g41200
SBS	Chr3	28794338	T-G	Homo	INTERGENIC
SBS	Chr4	1476174	C-T	HET	INTERGENIC
SBS	Chr4	24031368	A-C	Homo	INTERGENIC
SBS	Chr4	24031369	G-T	Homo	INTERGENIC
SBS	Chr4	9669753	C-A	HET	INTERGENIC
SBS	Chr5	10226319	G-A	HET	INTRON
SBS	Chr5	16335516	C-T	HET	INTERGENIC
SBS	Chr5	1905128	C-T	HET	INTERGENIC
SBS	Chr5	22495410	A-T	Homo	INTERGENIC
SBS	Chr5	22921735	T-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os05g39090
SBS	Chr6	10003125	T-C	HET	INTERGENIC
SBS	Chr6	27358364	C-T	HET	SYNONYMOUS_CODING
SBS	Chr6	6301301	A-G	HET	INTERGENIC
SBS	Chr6	6784935	G-T	HET	INTERGENIC
SBS	Chr7	11829810	C-T	HET	INTERGENIC
SBS	Chr8	17097732	G-A	Homo	INTERGENIC
SBS	Chr8	17097733	C-A	Homo	INTERGENIC
SBS	Chr8	6124980	T-C	Homo	INTERGENIC
SBS	Chr8	6352954	T-C	Homo	INTERGENIC
SBS	Chr9	12081052	T-C	Homo	INTRON
SBS	Chr9	21517143	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g37250

Deletions: 33

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr7	42438	42439	1
Deletion	Chr4	573495	573496	1
Deletion	Chr11	976346	976358	12	LOC_Os11g02880
Deletion	Chr9	5428058	5428068	10	LOC_Os09g09970
Deletion	Chr10	8593880	8593886	6
Deletion	Chr1	8603585	8603589	4
Deletion	Chr2	8657254	8657255	1
Deletion	Chr3	8812657	8812668	11
Deletion	Chr7	9177152	9177155	3	LOC_Os07g15800
Deletion	Chr8	11165001	11231000	66000	12
Deletion	Chr10	11306101	11306127	26
Deletion	Chr2	12282594	12282595	1	LOC_Os02g20800
Deletion	Chr4	13209137	13209139	2
Deletion	Chr4	14439008	14439010	2
Deletion	Chr5	14655951	14655963	12
Deletion	Chr9	14705826	14705828	2
Deletion	Chr11	16837354	16837359	5
Deletion	Chr12	17751718	17751720	2
Deletion	Chr4	18648967	18648997	30
Deletion	Chr11	21750289	21750294	5	LOC_Os11g36870
Deletion	Chr2	22818437	22832536	14099	LOC_Os02g37830
Deletion	Chr1	23374031	23374033	2
Deletion	Chr3	24236087	24236090	3
Deletion	Chr7	27102847	27102848	1
Deletion	Chr7	27481926	27481927	1
Deletion	Chr4	27777733	27777738	5
Deletion	Chr5	27970421	27970422	1
Deletion	Chr5	28334844	28334860	16	LOC_Os05g49420
Deletion	Chr6	28877607	28877609	2	LOC_Os06g47720
Deletion	Chr3	29835497	29835499	2
Deletion	Chr3	30041650	30041651	1	LOC_Os03g52310
Deletion	Chr2	30818796	30818798	2
Deletion	Chr2	32232513	32232514	1

Insertions: 20

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	21109752	21109752	1
Insertion	Chr1	33808456	33808456	1
Insertion	Chr1	614200	614201	2
Insertion	Chr10	18605258	18605317	60
Insertion	Chr12	10206227	10206246	20
Insertion	Chr12	16686033	16686054	22
Insertion	Chr12	20905699	20905699	1
Insertion	Chr2	21439399	21439428	30
Insertion	Chr3	22297431	22297438	8
Insertion	Chr3	22400220	22400221	2	LOC_Os03g40290
Insertion	Chr4	1453867	1453872	6
Insertion	Chr4	15295801	15295801	1
Insertion	Chr4	28047568	28047571	4
Insertion	Chr4	3985183	3985183	1
Insertion	Chr5	27435977	27435978	2
Insertion	Chr5	277569	277571	3
Insertion	Chr6	14629761	14629762	2
Insertion	Chr6	29396167	29396168	2
Insertion	Chr8	19998614	19998614	1
Insertion	Chr9	1075650	1075650	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	2422416	2431580	LOC_Os09g04540
Inversion	Chr10	4020363	5748094	LOC_Os10g10460

No Translocation

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