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Mutant Information

Mutant Name	FN1576-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1576-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: 23

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr2	10374290	C-T	HET	SYNONYMOUS_CODING
SBS	Chr2	32954174	C-A	HET	SPLICE_SITE_REGION
SBS	Chr3	1749597	A-C	Homo	INTERGENIC
SBS	Chr3	21465403	A-G	HET	INTERGENIC
SBS	Chr4	28960161	T-G	HET	NON_SYNONYMOUS_CODING	LOC_Os04g48590
SBS	Chr4	29188038	G-T	Homo	INTRON
SBS	Chr6	14860784	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os06g25370
SBS	Chr6	15734909	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g27790
SBS	Chr6	17270234	T-C	HET	INTERGENIC
SBS	Chr6	20545670	G-A	HET	INTERGENIC
SBS	Chr6	24279612	G-A	HET	INTRON
SBS	Chr6	28229409	T-G	Homo	INTRON
SBS	Chr7	17501094	C-T	HET	INTRON
SBS	Chr8	6962021	G-C	Homo	INTERGENIC
SBS	Chr8	8316628	C-T	HET	INTERGENIC
SBS	Chr8	8316633	C-T	HET	INTERGENIC
SBS	Chr9	18469751	C-T	HET	UTR_5_PRIME
SBS	Chr9	18471943	A-G	HET	INTRON
SBS	Chr9	18471944	C-A	HET	INTRON
SBS	Chr10	21366455	A-G	HET	INTERGENIC
SBS	Chr11	11499197	T-C	HET	INTERGENIC
SBS	Chr11	14006846	A-G	HET	UTR_3_PRIME
SBS	Chr11	14360446	T-A	HET	INTERGENIC

Deletions: 38

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	377601	377615	14
Deletion	Chr1	570260	570261	1	LOC_Os01g02050
Deletion	Chr10	1029455	1029467	12
Deletion	Chr2	1676277	1676278	1
Deletion	Chr8	2255207	2255213	6
Deletion	Chr4	2351552	2351556	4	LOC_Os04g04880
Deletion	Chr2	2416070	2416082	12	LOC_Os02g05080
Deletion	Chr6	2457727	2457731	4	LOC_Os06g05440
Deletion	Chr1	3761500	3761520	20
Deletion	Chr12	4606209	4606212	3
Deletion	Chr2	5707783	5707789	6
Deletion	Chr4	6659544	6659554	10
Deletion	Chr6	6766803	6769166	2363	LOC_Os06g12470
Deletion	Chr8	7093266	7093267	1
Deletion	Chr2	10117066	10117072	6
Deletion	Chr1	10777899	10777918	19	LOC_Os01g19050
Deletion	Chr4	13744715	13744727	12	LOC_Os04g24060
Deletion	Chr7	14330788	14330792	4	LOC_Os07g25090
Deletion	Chr12	15027292	15027300	8	LOC_Os12g25910
Deletion	Chr2	15435484	15435530	46
Deletion	Chr3	15869265	15869266	1
Deletion	Chr12	15968061	15968067	6	LOC_Os12g27210
Deletion	Chr12	16458091	16458094	3
Deletion	Chr6	16657246	16657250	4
Deletion	Chr3	17488220	17488221	1
Deletion	Chr7	17500991	17501002	11
Deletion	Chr4	19672286	19672297	11
Deletion	Chr12	20728406	20728407	1
Deletion	Chr11	22617388	22617397	9
Deletion	Chr8	22778161	22778162	1	LOC_Os08g36150
Deletion	Chr4	24974018	24974038	20	LOC_Os04g42210
Deletion	Chr5	26375095	26375104	9
Deletion	Chr4	26480326	26480335	9
Deletion	Chr6	26815944	26815946	2
Deletion	Chr4	28044435	28044438	3
Deletion	Chr4	30541120	30541121	1
Deletion	Chr1	32168660	32168661	1
Deletion	Chr3	35507684	35507687	3

Insertions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	10982745	10982753	9	LOC_Os01g19410
Insertion	Chr2	7159896	7159896	1
Insertion	Chr3	16233773	16233823	51	LOC_Os03g28204
Insertion	Chr3	26196887	26196887	1
Insertion	Chr4	18359939	18359940	2
Insertion	Chr6	9984221	9984226	6
Insertion	Chr6	26339213	26339213	1
Insertion	Chr6	28857996	28858070	75
Insertion	Chr7	20669707	20669744	38
Insertion	Chr8	8657538	8657538	1
Insertion	Chr10	2478261	2478262	2
Insertion	Chr11	4803269	4803270	2

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	739117	1350372	LOC_Os10g02160
Inversion	Chr10	739156	1350415	LOC_Os10g02160
Inversion	Chr8	1854364	2975423	LOC_Os08g05560
Inversion	Chr3	11644811	11753864

No Translocation

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