Search Nipponbare

Mutant Information

Mutant Name	FN1228-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1228-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: 41

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12269615	T-C	HET	INTERGENIC
SBS	Chr1	16467630	T-C	HET	INTERGENIC
SBS	Chr1	19504665	C-T	HET	INTERGENIC
SBS	Chr1	25555339	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os01g45030
SBS	Chr10	12321439	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os10g24050
SBS	Chr10	18991902	C-T	HET	INTERGENIC
SBS	Chr12	12234861	G-A	HET	INTERGENIC
SBS	Chr12	14422711	A-C	HET	INTERGENIC
SBS	Chr12	15527916	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os12g26560
SBS	Chr12	7417691	G-A	HET	INTERGENIC
SBS	Chr2	12496415	T-C	HOMO	INTERGENIC
SBS	Chr2	19813461	G-A	HET	INTERGENIC
SBS	Chr2	4948860	C-T	HOMO	INTERGENIC
SBS	Chr2	5540414	T-A	HOMO	INTERGENIC
SBS	Chr3	15142298	T-C	HET	INTERGENIC
SBS	Chr3	24374368	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g43610
SBS	Chr3	29385404	C-G	HET	INTERGENIC
SBS	Chr3	29385413	C-T	HET	INTERGENIC
SBS	Chr3	34617107	A-T	HET	INTERGENIC
SBS	Chr3	35510681	C-T	HET	INTERGENIC
SBS	Chr3	6506541	G-A	HOMO	INTERGENIC
SBS	Chr4	10513146	G-A	HET	INTERGENIC
SBS	Chr4	34904945	A-T	HET	INTRON
SBS	Chr4	4335314	C-A	HET	INTERGENIC
SBS	Chr4	7371255	C-G	HET	INTERGENIC
SBS	Chr5	14171272	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr5	21656615	A-T	HET	INTERGENIC
SBS	Chr5	25937118	C-A	HET	UTR_5_PRIME
SBS	Chr5	29053641	G-A	HET	INTERGENIC
SBS	Chr5	8664270	C-T	HOMO	INTERGENIC
SBS	Chr5	9515308	G-C	HET	INTERGENIC
SBS	Chr6	23862373	T-C	HET	INTERGENIC
SBS	Chr6	5820501	C-T	HET	SYNONYMOUS_CODING
SBS	Chr7	17293881	C-A	HET	INTERGENIC
SBS	Chr7	18746220	G-A	HET	INTERGENIC
SBS	Chr7	22657806	G-A	HET	INTERGENIC
SBS	Chr7	23995263	T-G	HOMO	INTERGENIC
SBS	Chr7	24982855	C-A	HOMO	INTERGENIC
SBS	Chr8	6940085	C-T	HET	INTERGENIC
SBS	Chr9	5366721	A-G	HOMO	INTERGENIC
SBS	Chr9	9307587	G-T	HOMO	INTERGENIC

Deletions: 30

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	190241	194015	3774
Deletion	Chr1	981531	981532	1
Deletion	Chr3	1677588	1677599	11
Deletion	Chr3	3568420	3568423	3
Deletion	Chr9	4349164	4349165	1
Deletion	Chr7	4701743	4701767	24
Deletion	Chr1	5745430	5745431	1
Deletion	Chr11	6023213	6023225	12
Deletion	Chr11	6196366	6196385	19
Deletion	Chr11	6198150	6198462	312
Deletion	Chr9	9460332	9460335	3	LOC_Os09g15460
Deletion	Chr9	10498201	10498210	9
Deletion	Chr1	10951576	10951602	26
Deletion	Chr1	11547217	11547222	5
Deletion	Chr2	12079171	12079172	1
Deletion	Chr11	14036819	14036849	30
Deletion	Chr1	17049254	17049255	1
Deletion	Chr11	17351757	17351758	1
Deletion	Chr10	17531854	17531873	19
Deletion	Chr7	18750503	18750505	2
Deletion	Chr7	19282875	19282881	6
Deletion	Chr7	20217898	20217901	3	LOC_Os07g33780
Deletion	Chr2	20692348	20692357	9
Deletion	Chr9	21141851	21141853	2
Deletion	Chr6	23171396	23171429	33
Deletion	Chr6	23862817	23862820	3
Deletion	Chr8	25024480	25024484	4	LOC_Os08g39560
Deletion	Chr1	25177474	25177483	9
Deletion	Chr2	26676160	26676161	1
Deletion	Chr4	29051598	29051602	4

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	12166990	12167002	13
Insertion	Chr1	4807434	4807435	2
Insertion	Chr1	6410089	6410089	1
Insertion	Chr11	26129615	26129616	2
Insertion	Chr7	28173836	28173836	1

Inversions: 6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	4729755	5772195	LOC_Os07g09050
Inversion	Chr8	16435701	17326152
Inversion	Chr12	17054932	17771111	LOC_Os12g28850
Inversion	Chr8	17333232	18002830
Inversion	Chr7	17587815	17740088	LOC_Os07g29880
Inversion	Chr4	24669500	24721362	2

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	18628274	Chr5	9638214

Main menu