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Mutant Information

Mutant Name	FN1236-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1236-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: 32

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13418289	A-G	HOMO	INTERGENIC
SBS	Chr1	30214974	T-C	HET	INTERGENIC
SBS	Chr10	11057136	A-T	HET	INTRON
SBS	Chr10	8605251	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr10	9237828	G-A	HET	INTERGENIC
SBS	Chr11	13735228	C-T	HET	INTERGENIC
SBS	Chr11	16073285	A-C	HET	INTERGENIC
SBS	Chr12	10003925	A-T	HOMO	STOP_GAINED	LOC_Os12g17460
SBS	Chr12	2564216	T-G	HET	INTERGENIC
SBS	Chr2	20273734	C-T	HET	INTERGENIC
SBS	Chr2	25177672	T-C	HOMO	SYNONYMOUS_CODING
SBS	Chr2	27059614	A-C	HOMO	SYNONYMOUS_CODING
SBS	Chr2	32754303	A-G	HOMO	INTERGENIC
SBS	Chr3	28494289	T-C	HET	INTERGENIC
SBS	Chr4	10018900	C-T	HET	INTERGENIC
SBS	Chr4	14740305	A-T	HET	INTERGENIC
SBS	Chr4	19851757	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os04g32880
SBS	Chr4	25914423	C-A	HOMO	INTRON
SBS	Chr4	4990371	A-T	HET	INTERGENIC
SBS	Chr4	5233792	T-C	HET	INTERGENIC
SBS	Chr5	1697516	A-G	HET	INTERGENIC
SBS	Chr5	24200394	G-T	HOMO	STOP_GAINED	LOC_Os05g41310
SBS	Chr5	24262698	A-G	HOMO	INTERGENIC
SBS	Chr6	4154261	A-T	HET	INTERGENIC
SBS	Chr7	11143768	G-A	HOMO	INTERGENIC
SBS	Chr7	27740435	T-C	HET	INTERGENIC
SBS	Chr7	4084882	T-G	HET	UTR_3_PRIME
SBS	Chr7	5991352	C-T	HET	INTRON
SBS	Chr8	15691473	T-C	HET	SYNONYMOUS_CODING
SBS	Chr8	3214494	C-T	HET	INTERGENIC
SBS	Chr9	15370035	A-T	HET	INTERGENIC
SBS	Chr9	2710054	T-C	HET	INTERGENIC

Deletions: 23

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr6	7491401	7491405	4
Deletion	Chr2	7540001	7624000	84000	10
Deletion	Chr12	7940232	8418178	477946	69
Deletion	Chr1	10024595	10024603	8
Deletion	Chr4	10061159	10061162	3
Deletion	Chr6	10441001	10586000	145000	22
Deletion	Chr8	11604051	11604069	18
Deletion	Chr12	12094515	12094520	5
Deletion	Chr9	12798141	12798150	9
Deletion	Chr8	13496842	13496843	1
Deletion	Chr8	13982912	13982920	8
Deletion	Chr10	14824940	14824942	2
Deletion	Chr9	16416249	16416251	2
Deletion	Chr12	18183166	18183173	7
Deletion	Chr12	21941843	21941844	1
Deletion	Chr4	24827752	24827758	6
Deletion	Chr8	25014946	25014959	13
Deletion	Chr1	25774994	25774999	5
Deletion	Chr8	26627350	26627359	9	LOC_Os08g42140
Deletion	Chr2	26705635	26719035	13400	2
Deletion	Chr8	26850950	26850959	9
Deletion	Chr11	28275745	28275815	70
Deletion	Chr1	31336721	31338742	2021	LOC_Os01g54480

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr2	20271875	20271875	1
Insertion	Chr7	1147254	1147254	1

Inversions: 7

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	7940236	10795722
Inversion	Chr12	8418176	10795721
Inversion	Chr3	8674630	8726603	2
Inversion	Chr6	10441014	10588606	2
Inversion	Chr6	10585976	10588611	LOC_Os06g18670
Inversion	Chr12	10896074	11405108
Inversion	Chr6	11886533	11952574

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	13915904	Chr2	26705648	LOC_Os02g44134
Translocation	Chr8	14222682	Chr6	14069920

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