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Mutant Information

Mutant Name	FN1426-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1426-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) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 25

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr10	10264569	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g20410
SBS	Chr10	16482019	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g31440
SBS	Chr10	16482020	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os10g31440
SBS	Chr10	1653697	C-T	HOMO	INTERGENIC
SBS	Chr10	20990397	G-A	HET	INTERGENIC
SBS	Chr11	12714332	C-G	HET	INTRON
SBS	Chr11	13075361	C-A	HET	INTERGENIC
SBS	Chr12	14999902	G-A	HET	INTERGENIC
SBS	Chr12	17520531	G-A	HET	INTERGENIC
SBS	Chr2	20041298	G-T	HET	INTRON
SBS	Chr2	31478739	T-A	HOMO	INTRON
SBS	Chr2	7394850	T-C	HET	INTERGENIC
SBS	Chr3	10149331	G-T	HET	SYNONYMOUS_CODING
SBS	Chr3	26623770	C-A	HET	UTR_3_PRIME
SBS	Chr3	2747169	A-G	HOMO	INTERGENIC
SBS	Chr4	15129469	C-T	HOMO	INTERGENIC
SBS	Chr4	15993603	C-T	HOMO	INTERGENIC
SBS	Chr4	29551026	G-A	HET	INTERGENIC
SBS	Chr4	29686753	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g49790
SBS	Chr4	30387809	T-C	HET	INTRON
SBS	Chr5	19941260	G-A	HET	INTERGENIC
SBS	Chr5	9327800	T-A	HET	INTRON
SBS	Chr6	17908161	T-C	HET	INTERGENIC
SBS	Chr6	24821774	C-A	HET	INTRON
SBS	Chr9	5686474	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os09g10390

Deletions: 19

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	4543041	4543055	14
Deletion	Chr4	4824767	4824803	36
Deletion	Chr11	6135548	6135549	1
Deletion	Chr5	7528058	7528063	5
Deletion	Chr1	8991313	8991314	1
Deletion	Chr7	15347590	15347591	1	LOC_Os07g26610
Deletion	Chr10	16495150	16495151	1	LOC_Os10g31460
Deletion	Chr1	16950429	16950443	14
Deletion	Chr5	18197519	18199690	2171	LOC_Os05g31300
Deletion	Chr5	18410715	18410719	4
Deletion	Chr8	21196334	21196335	1
Deletion	Chr3	22659695	22659696	1	LOC_Os03g40725
Deletion	Chr5	23446799	23446805	6
Deletion	Chr2	25428851	25428853	2
Deletion	Chr4	30399861	30399874	13
Deletion	Chr3	34477300	34477301	1	LOC_Os03g60650
Deletion	Chr1	37779740	37779741	1
Deletion	Chr1	42655152	42655154	2	LOC_Os01g73630
Deletion	Chr1	43258371	43258379	8	LOC_Os01g74680

Insertions: 2

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr10	4481051	4481055	5	LOC_Os10g08290
Insertion	Chr10	6485694	6485694	1

No Inversion

Translocations: 7

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	432259	Chr6	19592253
Translocation	Chr12	432264	Chr6	19591316
Translocation	Chr8	10108723	Chr6	18097957	LOC_Os08g16490
Translocation	Chr5	18197520	Chr1	6186579
Translocation	Chr5	18199687	Chr1	6186581
Translocation	Chr12	23312876	Chr7	15253966	LOC_Os12g37939
Translocation	Chr12	23312878	Chr7	15253968	LOC_Os12g37939

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