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Mutant Information

Mutant Name	FN1297-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1297-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Low (Between 25% and 74%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 50

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15379999	A-G	HET	INTERGENIC
SBS	Chr1	16428825	C-T	HET	INTRON
SBS	Chr1	22092088	G-A	HET	INTERGENIC
SBS	Chr1	22092089	G-A	HET	INTERGENIC
SBS	Chr1	22330641	T-A	HET	INTERGENIC
SBS	Chr1	22808716	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os01g40400
SBS	Chr1	25937524	A-T	HET	INTERGENIC
SBS	Chr1	41326493	G-A	HOMO	INTERGENIC
SBS	Chr1	41326496	C-T	HOMO	INTERGENIC
SBS	Chr2	8939059	G-C	HET	INTRON
SBS	Chr2	18435547	G-A	HET	INTERGENIC
SBS	Chr2	20424173	A-T	HOMO	INTERGENIC
SBS	Chr3	6339645	G-A	HET	INTRON
SBS	Chr3	9863238	T-C	HOMO	INTERGENIC
SBS	Chr3	11970420	T-C	HET	INTERGENIC
SBS	Chr3	18158365	T-C	HET	INTRON
SBS	Chr3	19983737	C-T	HET	INTRON
SBS	Chr4	4007977	C-T	HET	INTRON
SBS	Chr4	11420221	C-T	HET	INTERGENIC
SBS	Chr5	29917910	G-A	HET	INTERGENIC
SBS	Chr6	295981	A-T	HET	INTERGENIC
SBS	Chr6	13991390	G-A	HET	INTERGENIC
SBS	Chr6	15066808	A-G	HET	INTRON
SBS	Chr6	30837448	T-A	HET	INTERGENIC
SBS	Chr7	1065828	A-G	HET	INTERGENIC
SBS	Chr7	2059855	C-T	HET	INTERGENIC
SBS	Chr7	22041444	G-T	HET	INTERGENIC
SBS	Chr7	27809377	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os07g46560
SBS	Chr8	2241528	T-C	HET	INTERGENIC
SBS	Chr8	22283208	G-A	HOMO	INTERGENIC
SBS	Chr9	343189	T-G	HET	INTERGENIC
SBS	Chr9	5177567	G-A	HET	INTRON
SBS	Chr9	12081052	T-C	HET	INTRON
SBS	Chr9	12547825	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os09g20830
SBS	Chr9	12999644	T-G	HET	INTERGENIC
SBS	Chr9	20428183	T-G	HOMO	INTERGENIC
SBS	Chr9	20428184	G-T	HOMO	INTERGENIC
SBS	Chr10	5213009	G-A	HET	INTERGENIC
SBS	Chr10	5619500	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g10214
SBS	Chr10	11843143	C-T	HET	INTERGENIC
SBS	Chr10	17369703	T-A	HET	INTERGENIC
SBS	Chr11	4013338	C-T	HOMO	INTERGENIC
SBS	Chr11	18838096	A-G	HOMO	INTERGENIC
SBS	Chr11	21125400	A-T	HET	INTERGENIC
SBS	Chr12	2703069	A-T	HET	INTERGENIC
SBS	Chr12	10034894	G-T	HOMO	INTERGENIC
SBS	Chr12	11450248	T-C	HOMO	INTERGENIC
SBS	Chr12	17431472	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os12g29360
SBS	Chr12	22401418	G-A	HOMO	INTERGENIC
SBS	Chr12	24242495	C-T	HOMO	INTERGENIC

Deletions: 31

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	185752	185754	2
Deletion	Chr5	3252334	3252336	2	LOC_Os05g06350
Deletion	Chr10	3732004	3732019	15
Deletion	Chr11	3732560	3732562	2
Deletion	Chr9	4111973	4111975	2
Deletion	Chr12	7813860	7813861	1
Deletion	Chr1	8671975	8671986	11
Deletion	Chr1	8671981	8671992	11
Deletion	Chr10	9135070	9135071	1
Deletion	Chr12	15312238	15312242	4
Deletion	Chr3	16130547	16130555	8
Deletion	Chr9	17064804	17064816	12	LOC_Os09g28110
Deletion	Chr11	18556275	18556276	1	LOC_Os11g31700
Deletion	Chr10	19647742	19647749	7
Deletion	Chr7	19687001	19742000	55000	12
Deletion	Chr5	19833130	19833134	4
Deletion	Chr10	20066996	20067015	19
Deletion	Chr2	20190500	20190501	1
Deletion	Chr3	20443536	20443538	2
Deletion	Chr10	21915056	21915057	1
Deletion	Chr1	22089100	22089104	4
Deletion	Chr1	24066349	24097402	31053	2
Deletion	Chr1	24123454	24123465	11	LOC_Os01g42420
Deletion	Chr5	24589457	24589474	17	2
Deletion	Chr4	25244934	25244935	1	LOC_Os04g42670
Deletion	Chr5	27914980	27914981	1
Deletion	Chr5	29074293	29074294	1
Deletion	Chr1	30451630	30451631	1
Deletion	Chr1	31231298	31231304	6
Deletion	Chr3	33955014	33955027	13
Deletion	Chr4	33980551	33980552	1

Insertions: 9

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr6	8569086	8569087	2
Insertion	Chr10	16401948	16401949	2
Insertion	Chr2	3474836	3474836	1
Insertion	Chr2	21772380	21772381	2
Insertion	Chr4	20326665	20326665	1
Insertion	Chr7	29332646	29332647	2
Insertion	Chr8	20315618	20315627	10
Insertion	Chr9	10327470	10327471	2
Insertion	Chr11	25763332	25763335	4

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	10248185	10528397	LOC_Os04g18550

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	8980171	Chr7	29117667	LOC_Os07g48630

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