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Mutant Information

Mutant Name	FN1254-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1254-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: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: 31

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	381309	G-T	HET	INTERGENIC
SBS	Chr1	4046352	A-T	HET	INTERGENIC
SBS	Chr1	36488796	G-T	HET	INTRON
SBS	Chr1	37934638	C-T	HOMO	INTERGENIC
SBS	Chr2	5099408	C-T	HET	INTERGENIC
SBS	Chr2	11722189	C-T	HOMO	INTRON
SBS	Chr2	20282309	T-A	HOMO	INTERGENIC
SBS	Chr3	12478625	C-T	HOMO	INTRON
SBS	Chr3	30329998	C-T	HOMO	INTERGENIC
SBS	Chr3	34568233	T-C	HET	INTERGENIC
SBS	Chr4	13602289	C-T	HOMO	INTRON
SBS	Chr4	24808994	A-G	HET	INTERGENIC
SBS	Chr4	32523044	C-T	HOMO	INTERGENIC
SBS	Chr4	34890346	C-G	HOMO	INTERGENIC
SBS	Chr5	17898416	T-C	HOMO	INTERGENIC
SBS	Chr5	20196109	G-A	HET	INTERGENIC
SBS	Chr7	1050014	A-G	HET	INTERGENIC
SBS	Chr7	26219370	C-T	HOMO	INTERGENIC
SBS	Chr9	13928224	A-G	HET	INTERGENIC
SBS	Chr9	18653570	C-T	HOMO	INTERGENIC
SBS	Chr9	21775034	T-A	HOMO	INTRON
SBS	Chr10	9070010	C-T	HET	INTERGENIC
SBS	Chr10	10141164	G-A	HET	SYNONYMOUS_CODING
SBS	Chr10	10743214	G-T	HET	INTERGENIC
SBS	Chr10	21837291	A-G	HOMO	NON_SYNONYMOUS_CODING	LOC_Os10g40710
SBS	Chr11	1238562	A-G	HOMO	INTERGENIC
SBS	Chr11	4524441	G-A	HET	INTRON
SBS	Chr11	11664687	T-C	HET	INTERGENIC
SBS	Chr11	18688235	G-T	HET	INTERGENIC
SBS	Chr12	4981793	G-A	HET	INTERGENIC
SBS	Chr12	20246829	G-T	HET	INTERGENIC

Deletions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	4445413	4445415	2
Deletion	Chr5	6261001	6316000	55000	6
Deletion	Chr1	6315129	6315131	2
Deletion	Chr9	8637581	8637582	1
Deletion	Chr9	8856205	8856206	1
Deletion	Chr2	11513875	11513889	14
Deletion	Chr5	15648001	15655000	7000
Deletion	Chr11	16053473	16053474	1	LOC_Os11g27890
Deletion	Chr5	16792164	16792174	10
Deletion	Chr10	17421935	17439627	17692	3
Deletion	Chr11	17642868	17642891	23
Deletion	Chr4	22411001	22428000	17000	3
Deletion	Chr10	22759386	22759390	4	LOC_Os10g42270
Deletion	Chr5	22921958	22921965	7	LOC_Os05g39090
Deletion	Chr10	23044238	23044253	15
Deletion	Chr11	23705926	23705927	1
Deletion	Chr12	24834173	24834175	2
Deletion	Chr3	25050859	25050862	3	LOC_Os03g44500
Deletion	Chr3	26695455	26695456	1
Deletion	Chr11	27039071	27039084	13
Deletion	Chr7	28454296	28454297	1
Deletion	Chr7	29020241	29020248	7

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	11378557	11378558	2
Insertion	Chr1	41354715	41354715	1
Insertion	Chr2	33868052	33868052	1
Insertion	Chr8	26530008	26530008	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	16367931	31013334	LOC_Os04g52200
Inversion	Chr1	16994286	17283261

No Translocation

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