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Mutant Information

Mutant Name	FN1229-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1229-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) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 37

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	40699469	C-T	HOMO	INTRON
SBS	Chr10	10009259	G-A	HET	INTERGENIC
SBS	Chr10	11580977	T-A	HET	INTERGENIC
SBS	Chr11	14303960	A-G	HET	INTERGENIC
SBS	Chr12	13083676	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os12g23130
SBS	Chr12	17178263	C-T	HET	INTERGENIC
SBS	Chr12	22502655	T-A	HET	INTERGENIC
SBS	Chr12	22502658	T-C	HET	INTERGENIC
SBS	Chr12	22765441	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os12g37140
SBS	Chr12	25180483	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os12g40670
SBS	Chr12	26465567	G-T	HET	INTERGENIC
SBS	Chr12	26465568	C-T	HET	INTERGENIC
SBS	Chr12	4618841	T-A	HOMO	INTERGENIC
SBS	Chr12	5448730	T-A	HOMO	INTERGENIC
SBS	Chr2	19994897	G-C	HET	INTERGENIC
SBS	Chr2	3614281	T-G	HET	INTERGENIC
SBS	Chr3	24300436	C-A	HET	INTERGENIC
SBS	Chr4	27094906	C-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g45780
SBS	Chr4	35498128	G-T	HET	INTERGENIC
SBS	Chr4	5033893	T-A	HOMO	INTERGENIC
SBS	Chr4	6285600	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr5	15390458	A-G	HET	SYNONYMOUS_CODING
SBS	Chr5	9014962	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os05g15970
SBS	Chr6	24316002	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g40780
SBS	Chr7	12685468	C-T	HET	INTERGENIC
SBS	Chr7	13489243	T-C	HET	INTRON
SBS	Chr7	25878110	C-T	HET	INTERGENIC
SBS	Chr7	28706966	T-A	HET	INTERGENIC
SBS	Chr8	19863755	C-T	HET	STOP_GAINED	LOC_Os08g32020
SBS	Chr8	21337303	C-T	HET	INTERGENIC
SBS	Chr9	11395074	A-T	HOMO	UTR_3_PRIME
SBS	Chr9	11414275	T-A	HOMO	INTERGENIC
SBS	Chr9	3172181	A-T	HET	INTERGENIC
SBS	Chr9	826549	G-A	HET	INTERGENIC
SBS	Chr9	8330241	A-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g14070
SBS	Chr9	900638	C-T	HET	INTERGENIC
SBS	Chr9	9188696	A-C	HET	INTERGENIC

Deletions: 21

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr2	1971014	1972409	1395	LOC_Os02g04450
Deletion	Chr7	2938249	2938250	1
Deletion	Chr5	4178773	4178775	2	LOC_Os05g07750
Deletion	Chr8	5708668	5708671	3	LOC_Os08g09890
Deletion	Chr4	7233531	7233541	10	LOC_Os04g13110
Deletion	Chr7	7773468	7773473	5	LOC_Os07g13560
Deletion	Chr5	8247562	8247563	1
Deletion	Chr1	10098199	10098202	3
Deletion	Chr8	10296066	10296067	1
Deletion	Chr8	10444460	10444461	1	LOC_Os08g17060
Deletion	Chr1	11747225	11747226	1
Deletion	Chr9	11988770	11988776	6	LOC_Os09g20010
Deletion	Chr11	12899369	12899380	11
Deletion	Chr12	12991680	12991744	64	LOC_Os12g22980
Deletion	Chr12	13326346	13326347	1	LOC_Os12g23540
Deletion	Chr10	14812865	14812867	2	LOC_Os10g28470
Deletion	Chr6	16506111	16506112	1
Deletion	Chr11	18487015	18487030	15	LOC_Os11g31620
Deletion	Chr11	22454602	22454606	4	LOC_Os11g37880
Deletion	Chr8	23138860	23138865	5
Deletion	Chr4	30433565	30433569	4

Insertions: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	31489786	31489786	1

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	12472954	15045219	LOC_Os10g28860
Inversion	Chr2	16075710	16509962	LOC_Os02g27890
Inversion	Chr2	16075723	16509977	LOC_Os02g27890

No Translocation

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