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Mutant Information

Mutant Name	FN1572-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1572-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal 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: 39

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	17317010	C-G	HET	INTRON
SBS	Chr1	22023748	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os01g39134
SBS	Chr1	23876354	C-T	HET	INTERGENIC
SBS	Chr1	34057660	G-A	HET	SYNONYMOUS_CODING
SBS	Chr1	38220280	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g65810
SBS	Chr10	15131277	A-C	Homo	INTERGENIC
SBS	Chr10	8966168	C-A	HET	INTERGENIC
SBS	Chr10	965356	C-T	HET	SYNONYMOUS_CODING
SBS	Chr11	10378174	G-A	Homo	INTERGENIC
SBS	Chr11	23038297	C-T	HET	INTERGENIC
SBS	Chr11	316664	C-T	Homo	INTERGENIC
SBS	Chr11	7584810	C-G	Homo	UTR_3_PRIME
SBS	Chr11	8201250	T-A	Homo	INTRON
SBS	Chr12	14030721	G-C	Homo	NON_SYNONYMOUS_CODING	LOC_Os12g24550
SBS	Chr12	15304766	G-A	Homo	INTERGENIC
SBS	Chr12	25858661	C-T	HET	INTERGENIC
SBS	Chr2	20530797	C-T	HET	SYNONYMOUS_CODING
SBS	Chr2	21450013	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os02g35690
SBS	Chr2	23844830	G-A	Homo	INTERGENIC
SBS	Chr2	3756077	C-G	HET	INTERGENIC
SBS	Chr2	8384036	C-T	Homo	INTERGENIC
SBS	Chr2	8402922	G-A	Homo	STOP_GAINED	LOC_Os02g15070
SBS	Chr3	14735242	G-A	HET	INTRON
SBS	Chr3	14735244	G-A	HET	INTRON
SBS	Chr3	25218515	A-T	Homo	INTERGENIC
SBS	Chr3	2702327	A-G	HET	INTERGENIC
SBS	Chr4	10376462	A-G	HET	INTERGENIC
SBS	Chr4	10635111	G-A	HET	INTERGENIC
SBS	Chr4	13856772	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g24210
SBS	Chr4	15051148	G-T	HET	INTERGENIC
SBS	Chr4	2327588	G-C	HET	INTRON
SBS	Chr5	29652448	C-T	HET	INTERGENIC
SBS	Chr5	4602640	G-T	HET	INTRON
SBS	Chr5	482251	A-T	Homo	INTERGENIC
SBS	Chr5	929372	T-G	Homo	INTRON
SBS	Chr7	5689086	T-G	HET	INTERGENIC
SBS	Chr8	16567981	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os08g27110
SBS	Chr9	14737212	T-C	Homo	INTERGENIC
SBS	Chr9	18228192	C-T	HET	INTRON

Deletions: 32

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	339564	339565	1
Deletion	Chr11	1052674	1052675	1
Deletion	Chr7	1405933	1405934	1	LOC_Os07g03520
Deletion	Chr3	2459293	2459300	7
Deletion	Chr3	2629229	2629235	6
Deletion	Chr6	3903740	3903741	1	LOC_Os06g08070
Deletion	Chr11	3949172	3949173	1
Deletion	Chr10	4011324	4011328	4
Deletion	Chr10	8419283	8419303	20
Deletion	Chr2	10344164	10344173	9
Deletion	Chr2	11781594	11781596	2	LOC_Os02g20010
Deletion	Chr9	11963444	11963445	1
Deletion	Chr8	15056860	15056862	2
Deletion	Chr11	15445916	15445918	2	LOC_Os11g26880
Deletion	Chr3	15930731	15930735	4
Deletion	Chr1	15980148	15980149	1
Deletion	Chr11	16278872	16278874	2
Deletion	Chr4	17509994	17509997	3	LOC_Os04g29450
Deletion	Chr1	18103534	18103538	4
Deletion	Chr5	18261001	18301000	40000	7
Deletion	Chr1	22030801	22030820	19
Deletion	Chr4	22444168	22444177	9
Deletion	Chr1	24247804	24247823	19
Deletion	Chr4	26280502	26280511	9
Deletion	Chr6	26324330	26324332	2
Deletion	Chr3	26651621	26651623	2	LOC_Os03g47120
Deletion	Chr11	26802247	26802248	1	LOC_Os11g44340
Deletion	Chr5	27640846	27640847	1
Deletion	Chr5	27640847	27640848	1
Deletion	Chr3	28059235	28059245	10
Deletion	Chr2	31095427	31095429	2
Deletion	Chr3	35435131	35436273	1142

Insertions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	26424691	26424691	1
Insertion	Chr1	5763703	5763704	2
Insertion	Chr11	20878014	20878015	2
Insertion	Chr11	9521670	9521673	4
Insertion	Chr12	21983154	21983156	3
Insertion	Chr12	7670531	7670531	1
Insertion	Chr2	18460158	18460203	46
Insertion	Chr3	16351803	16351803	1
Insertion	Chr3	18983750	18983752	3
Insertion	Chr3	21887146	21887147	2
Insertion	Chr3	25164238	25164239	2
Insertion	Chr4	20610492	20610566	75	LOC_Os04g34030
Insertion	Chr4	22587228	22587228	1	LOC_Os04g37960
Insertion	Chr4	24275655	24275656	2
Insertion	Chr4	26317313	26317313	1
Insertion	Chr5	19846466	19846466	1
Insertion	Chr5	27226910	27226980	71
Insertion	Chr6	18938673	18938673	1
Insertion	Chr6	448491	448491	1
Insertion	Chr7	12237763	12237763	1
Insertion	Chr7	23315021	23315021	1
Insertion	Chr9	14737227	14737227	1

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2
Inversion	Chr2	20373422	20528420
Inversion	Chr3	26668444	26909289
Inversion	Chr3	26668456	26909293

No Translocation

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