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Mutant Information

Mutant Name	FN1600-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1600-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: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: 24

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	19777518	G-A	HET	INTERGENIC
SBS	Chr1	29842025	A-T	HET	INTERGENIC
SBS	Chr1	33444629	G-A	Homo	INTRON
SBS	Chr10	20803078	A-G	HET	INTRON
SBS	Chr10	5759614	T-A	HET	INTERGENIC
SBS	Chr10	637239	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g02010
SBS	Chr10	6463596	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os10g11690
SBS	Chr11	15445986	C-A	Homo	INTERGENIC
SBS	Chr11	16893442	C-A	Homo	INTERGENIC
SBS	Chr11	2480126	G-A	HET	INTERGENIC
SBS	Chr11	564367	T-C	HET	UTR_5_PRIME
SBS	Chr12	16750359	A-T	Homo	INTERGENIC
SBS	Chr2	19682271	T-A	HET	INTERGENIC
SBS	Chr2	29392176	T-C	HET	INTERGENIC
SBS	Chr2	33235833	C-T	HET	SYNONYMOUS_CODING
SBS	Chr2	8189832	G-A	HET	INTERGENIC
SBS	Chr3	15342943	A-C	Homo	INTERGENIC
SBS	Chr3	15342944	T-C	Homo	INTERGENIC
SBS	Chr3	35866211	G-A	HET	INTRON
SBS	Chr4	11407943	G-T	HET	INTERGENIC
SBS	Chr5	5498994	A-T	HET	INTERGENIC
SBS	Chr5	8586477	G-A	HET	INTRON
SBS	Chr6	15266175	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g26080
SBS	Chr9	16772153	G-T	HET	INTERGENIC

Deletions: 41

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	1415531	1415535	4
Deletion	Chr2	1467368	1467372	4
Deletion	Chr3	1491340	1491344	4
Deletion	Chr11	2354353	2354354	1
Deletion	Chr2	3356298	3356300	2
Deletion	Chr3	3595127	3595129	2
Deletion	Chr10	4102247	4102261	14
Deletion	Chr9	5280352	5303631	23279	3
Deletion	Chr10	5367294	5367301	7
Deletion	Chr9	6354543	6354561	18	LOC_Os09g11410
Deletion	Chr10	6481136	6481137	1
Deletion	Chr5	7427225	7430847	3622	LOC_Os05g13380
Deletion	Chr5	7861073	7861082	9
Deletion	Chr4	8884411	8884412	1
Deletion	Chr10	8961248	8961263	15
Deletion	Chr2	11958284	11984963	26679	5
Deletion	Chr11	12315121	12315276	155
Deletion	Chr12	13980016	13980028	12
Deletion	Chr3	15234873	15234876	3
Deletion	Chr11	15298543	15298544	1
Deletion	Chr12	16305205	16305212	7
Deletion	Chr12	17185291	17185292	1
Deletion	Chr3	18547894	18547936	42
Deletion	Chr6	18830254	18839744	9490	3
Deletion	Chr9	19527997	19528001	4
Deletion	Chr6	20181073	20181079	6
Deletion	Chr7	20422738	20422739	1
Deletion	Chr9	20573822	20573835	13	LOC_Os09g35760
Deletion	Chr8	20772328	20772337	9
Deletion	Chr5	21547093	21547096	3
Deletion	Chr12	21855094	21855100	6
Deletion	Chr6	22472581	22472587	6
Deletion	Chr11	24355001	24396000	41000	7
Deletion	Chr3	24388552	24388556	4
Deletion	Chr6	24401827	24401842	15	LOC_Os06g40940
Deletion	Chr4	24451317	24451319	2
Deletion	Chr6	27225149	27225155	6
Deletion	Chr3	28147971	28147972	1
Deletion	Chr6	29909392	29909412	20
Deletion	Chr4	30520189	30520194	5
Deletion	Chr3	34944900	34944907	7

Insertions: 9

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	30817062	30817063	2
Insertion	Chr1	6375282	6375285	4
Insertion	Chr11	25643681	25643696	16
Insertion	Chr2	30406837	30406837	1
Insertion	Chr2	6710930	6710935	6
Insertion	Chr4	16512670	16512679	10
Insertion	Chr4	320153	320184	32
Insertion	Chr7	23796333	23796337	5
Insertion	Chr7	5268745	5268746	2

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	2719	2838	LOC_Os12g01010
Inversion	Chr4	11204394	11204674
Inversion	Chr1	12849747	12849873	LOC_Os01g22870
Inversion	Chr1	19600503	22364786
Inversion	Chr3	20164316	20434204

Translocations: 4

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	5851470	Chr9	22371341	2
Translocation	Chr4	15896406	Chr1	9105547
Translocation	Chr8	20853774	Chr1	17838357
Translocation	Chr6	21657465	Chr4	17923255	LOC_Os06g36770

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