Search Nipponbare

Mutant Information

Mutant Name	FN1293-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1293-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: 27

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13885855	A-T	HET	INTERGENIC
SBS	Chr1	37173534	A-G	HOMO	INTERGENIC
SBS	Chr10	12709322	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g24710
SBS	Chr11	13254405	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g23050
SBS	Chr11	14903257	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g26050
SBS	Chr11	3822824	G-A	HET	INTRON
SBS	Chr12	26160870	G-T	HET	INTERGENIC
SBS	Chr12	26160871	C-T	HET	INTERGENIC
SBS	Chr2	10167038	G-A	HOMO	INTERGENIC
SBS	Chr2	33411210	A-G	HOMO	INTERGENIC
SBS	Chr2	390124	A-C	HET	INTERGENIC
SBS	Chr2	4306382	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g08130
SBS	Chr3	18197027	G-A	HET	INTERGENIC
SBS	Chr3	2281529	T-C	HOMO	SYNONYMOUS_CODING
SBS	Chr3	23461589	T-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g42170
SBS	Chr3	23461590	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g42170
SBS	Chr3	3030887	C-T	HOMO	INTERGENIC
SBS	Chr3	7983344	T-A	HOMO	INTRON
SBS	Chr4	23144813	C-A	HET	INTERGENIC
SBS	Chr4	8851877	A-T	HET	INTERGENIC
SBS	Chr5	2690596	G-A	HET	STOP_GAINED	LOC_Os05g05420
SBS	Chr5	4247129	T-C	HET	INTERGENIC
SBS	Chr6	5206565	A-T	HET	INTERGENIC
SBS	Chr7	14787929	C-T	HET	INTERGENIC
SBS	Chr7	22444668	G-A	HOMO	INTERGENIC
SBS	Chr7	9652891	A-T	HET	INTERGENIC
SBS	Chr8	23996410	C-T	HOMO	UTR_3_PRIME

Deletions: 20

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	3647314	3647318	4
Deletion	Chr6	5549914	5549924	10
Deletion	Chr6	6734062	6734074	12	LOC_Os06g12400
Deletion	Chr10	7302551	7302561	10	LOC_Os10g13505
Deletion	Chr7	9535792	9535795	3
Deletion	Chr3	9992218	9992225	7
Deletion	Chr4	10811712	10811720	8
Deletion	Chr3	10945463	10945468	5	LOC_Os03g19462
Deletion	Chr7	11110255	11110419	164
Deletion	Chr8	12291001	12304000	13000	2
Deletion	Chr8	12814905	12814931	26
Deletion	Chr1	13206730	13207032	302
Deletion	Chr5	15155064	15155066	2
Deletion	Chr7	15837631	15837641	10
Deletion	Chr4	17166187	17166201	14
Deletion	Chr9	19783001	19909000	126000	17
Deletion	Chr2	22172988	22172989	1
Deletion	Chr3	23517237	23517249	12	LOC_Os03g42270
Deletion	Chr3	35009046	35009068	22
Deletion	Chr1	35475735	35475736	1

Insertions: 3

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr11	8782627	8782630	4	LOC_Os11g15500
Insertion	Chr2	17850754	17850755	2
Insertion	Chr6	7527996	7527996	1

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	15119388	16480442
Inversion	Chr7	15122871	16480430
Inversion	Chr10	20132060	20585022	LOC_Os10g37620
Inversion	Chr1	24395318	25135784	2

Translocations: 9

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	1827307	Chr7	10298338	LOC_Os08g03820
Translocation	Chr8	1828915	Chr7	10298303	LOC_Os08g03825
Translocation	Chr11	7117859	Chr4	18024546	LOC_Os04g30200
Translocation	Chr10	15476005	Chr3	18904930
Translocation	Chr7	16017260	Chr5	3266974	LOC_Os07g27480
Translocation	Chr12	26904451	Chr1	13207027	LOC_Os12g43363
Translocation	Chr12	26904453	Chr1	13206742	LOC_Os12g43363
Translocation	Chr8	27733813	Chr2	2696906	2
Translocation	Chr8	27741540	Chr2	2696904	LOC_Os02g05560

Main menu