Search Nipponbare

Mutant Information

Mutant Name	FN1262-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1262-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) = Low (Between 25% and 74%) 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: 30

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4550369	G-C	HET	INTERGENIC
SBS	Chr1	4747817	A-G	HET	INTRON
SBS	Chr10	22806021	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g42364
SBS	Chr12	14693223	T-A	HOMO	INTERGENIC
SBS	Chr12	14693241	T-C	HOMO	INTERGENIC
SBS	Chr12	15706585	T-G	HET	INTERGENIC
SBS	Chr12	18432680	A-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g30690
SBS	Chr12	27162429	T-A	HOMO	INTERGENIC
SBS	Chr2	11313534	G-T	HET	INTERGENIC
SBS	Chr2	21845783	G-T	HOMO	INTRON
SBS	Chr2	6697909	T-C	HET	INTERGENIC
SBS	Chr3	25588216	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g45320
SBS	Chr3	29419488	C-A	HET	INTERGENIC
SBS	Chr4	16221189	C-A	HET	INTERGENIC
SBS	Chr4	16359426	A-G	HET	INTERGENIC
SBS	Chr4	25834734	C-T	HET	UTR_3_PRIME
SBS	Chr4	29641694	G-A	HET	SYNONYMOUS_CODING
SBS	Chr5	10091870	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g17570
SBS	Chr5	4054398	G-T	HET	INTERGENIC
SBS	Chr6	13833746	A-C	HET	INTERGENIC
SBS	Chr6	17689497	G-T	HET	STOP_GAINED	LOC_Os06g30570
SBS	Chr6	5434705	G-T	HET	INTERGENIC
SBS	Chr6	8161206	T-A	HET	INTERGENIC
SBS	Chr6	8875050	C-A	HET	INTERGENIC
SBS	Chr6	9637563	A-G	HET	INTERGENIC
SBS	Chr7	15378907	C-T	HET	INTERGENIC
SBS	Chr7	15378911	T-A	HET	INTERGENIC
SBS	Chr7	831442	G-T	HET	INTERGENIC
SBS	Chr8	22969480	T-A	HOMO	INTERGENIC
SBS	Chr9	6738443	G-A	HET	INTERGENIC

Deletions: 29

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	1521977	1521985	8
Deletion	Chr9	2405570	2405575	5
Deletion	Chr2	2592001	3175000	583000	98
Deletion	Chr12	3079312	3079335	23
Deletion	Chr7	3264558	3264564	6
Deletion	Chr1	4669809	4669811	2
Deletion	Chr11	5851223	5851233	10
Deletion	Chr2	6835836	6835837	1
Deletion	Chr2	7720789	7720790	1	LOC_Os02g14130
Deletion	Chr12	8921079	8921084	5	LOC_Os12g15620
Deletion	Chr10	12041119	12041124	5
Deletion	Chr3	14302760	14302763	3	LOC_Os03g25060
Deletion	Chr4	15342785	15342786	1	LOC_Os04g26320
Deletion	Chr7	15360970	15361008	38
Deletion	Chr11	17601395	17601399	4	LOC_Os11g30310
Deletion	Chr7	17776043	17776047	4
Deletion	Chr1	18068605	18068617	12
Deletion	Chr4	18433001	18580000	147000	22
Deletion	Chr4	18844341	18844357	16
Deletion	Chr6	19818562	19818565	3
Deletion	Chr2	21814741	21814743	2
Deletion	Chr8	22551778	22551797	19
Deletion	Chr8	24397792	24397801	9
Deletion	Chr8	27365830	27365907	77
Deletion	Chr2	28071515	28071516	1
Deletion	Chr7	29269737	29269738	1	LOC_Os07g48910
Deletion	Chr5	29434700	29434706	6	LOC_Os05g51310
Deletion	Chr3	36259793	36259801	8
Deletion	Chr1	39604030	39604034	4

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr12	3680394	3680394	1
Insertion	Chr4	20440159	20440159	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	25445817	26307622	LOC_Os01g44350
Inversion	Chr1	25445836	26307632	LOC_Os01g44350

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	2933877	Chr7	6953401	2
Translocation	Chr10	2933889	Chr7	6955434	2
Translocation	Chr9	8941257	Chr1	30237197
Translocation	Chr12	15284223	Chr10	15776444
Translocation	Chr11	25650477	Chr7	9569138	LOC_Os11g42610

Main menu