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Mutant Information

Mutant Name	FN1557-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1557-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000346 (Tiller number) = Normal (Between 75% and 125%) 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: 46

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12186943	G-A	HET	INTERGENIC
SBS	Chr1	40341322	G-C	HET	INTERGENIC
SBS	Chr10	20641465	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os10g38750
SBS	Chr10	6634132	G-A	Homo	NON_SYNONYMOUS_CODING	LOC_Os10g11970
SBS	Chr11	11094410	T-C	Homo	INTERGENIC
SBS	Chr11	11234730	A-G	Homo	INTERGENIC
SBS	Chr11	25523186	C-G	Homo	NON_SYNONYMOUS_CODING	LOC_Os11g42410
SBS	Chr11	26527618	A-G	Homo	UTR_3_PRIME
SBS	Chr11	275532	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g01470
SBS	Chr11	6243049	T-C	HET	INTERGENIC
SBS	Chr12	8513470	C-T	HET	INTERGENIC
SBS	Chr12	8634703	C-T	HET	INTRON
SBS	Chr2	21452567	G-A	HET	INTERGENIC
SBS	Chr2	22498796	T-A	HET	INTRON
SBS	Chr2	25234635	T-C	HET	INTRON
SBS	Chr2	26853646	G-A	HET	SYNONYMOUS_CODING
SBS	Chr2	26853647	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g44370
SBS	Chr3	27182565	C-T	Homo	INTERGENIC
SBS	Chr3	382523	A-G	Homo	INTERGENIC
SBS	Chr4	12880070	G-T	HET	INTRON
SBS	Chr4	12880071	G-T	HET	INTRON
SBS	Chr4	1787471	C-T	Homo	INTERGENIC
SBS	Chr4	214969	T-C	HET	INTERGENIC
SBS	Chr4	23338071	G-T	HET	INTERGENIC
SBS	Chr4	28134212	T-G	HET	INTRON
SBS	Chr4	3177724	G-A	HET	INTERGENIC
SBS	Chr4	35289845	G-A	HET	INTERGENIC
SBS	Chr4	380489	C-A	HET	INTERGENIC
SBS	Chr4	382493	C-T	HET	STOP_GAINED	LOC_Os04g01560
SBS	Chr4	8412274	G-C	HET	INTERGENIC
SBS	Chr4	9756003	G-A	Homo	INTERGENIC
SBS	Chr5	19229315	G-A	HET	INTERGENIC
SBS	Chr5	19229316	G-T	HET	INTERGENIC
SBS	Chr5	5224521	A-T	HET	INTERGENIC
SBS	Chr6	11880098	A-G	HET	INTRON
SBS	Chr6	16437343	C-A	HET	INTERGENIC
SBS	Chr6	21833778	C-T	HET	INTERGENIC
SBS	Chr6	22417130	G-A	HET	SYNONYMOUS_CODING
SBS	Chr7	15948286	C-T	Homo	INTERGENIC
SBS	Chr8	10866959	A-G	HET	INTERGENIC
SBS	Chr8	15568883	C-T	HET	INTERGENIC
SBS	Chr8	3376	T-C	HET	INTERGENIC
SBS	Chr8	8149917	T-C	HET	INTERGENIC
SBS	Chr9	17611016	T-G	HET	INTERGENIC
SBS	Chr9	18832425	G-A	HET	INTERGENIC
SBS	Chr9	7260586	T-C	Homo	INTERGENIC

Deletions: 39

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	380093	380100	7
Deletion	Chr10	3608347	3608351	4
Deletion	Chr4	3842042	3842048	6	LOC_Os04g07240
Deletion	Chr12	4118059	4118060	1
Deletion	Chr12	5208379	5208393	14
Deletion	Chr5	5269844	5269866	22	LOC_Os05g09380
Deletion	Chr10	5823557	5823558	1
Deletion	Chr3	6457717	6457725	8
Deletion	Chr9	7645001	7741000	96000	13
Deletion	Chr10	7875442	7875444	2
Deletion	Chr9	8204001	8204011	10
Deletion	Chr6	8591479	8591480	1
Deletion	Chr1	9792166	9792167	1
Deletion	Chr7	10580981	10604026	23045	4
Deletion	Chr10	11481330	11481340	10
Deletion	Chr8	13015914	13016193	279
Deletion	Chr3	14088267	14088271	4
Deletion	Chr1	15576361	15576362	1
Deletion	Chr9	17176182	17176183	1
Deletion	Chr7	17473741	17473749	8
Deletion	Chr12	17771964	17771974	10
Deletion	Chr6	18341070	18341076	6
Deletion	Chr1	21999167	21999169	2
Deletion	Chr9	22071896	22071897	1
Deletion	Chr4	22305405	22305407	2
Deletion	Chr8	24971034	24971058	24
Deletion	Chr5	26028811	26028814	3	LOC_Os05g44780
Deletion	Chr1	26137990	26137992	2
Deletion	Chr1	26883386	26883387	1
Deletion	Chr6	27705218	27705233	15
Deletion	Chr1	29950124	29950125	1	LOC_Os01g52090
Deletion	Chr6	30084225	30084226	1
Deletion	Chr2	30797818	30797819	1
Deletion	Chr4	32544232	32544234	2
Deletion	Chr1	32648440	32648441	1
Deletion	Chr2	34304290	34304302	12
Deletion	Chr2	34323823	34323824	1	LOC_Os02g56080
Deletion	Chr3	36282451	36282457	6	LOC_Os03g64210
Deletion	Chr1	36591367	36591368	1	LOC_Os01g63150

Insertions: 15

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	41835407	41835407	1
Insertion	Chr1	42965165	42965166	2
Insertion	Chr10	2543884	2543916	33	LOC_Os10g05190
Insertion	Chr10	2792363	2792364	2
Insertion	Chr11	5727284	5727285	2
Insertion	Chr11	6391544	6391544	1
Insertion	Chr12	5472594	5472641	48
Insertion	Chr2	24438313	24438313	1
Insertion	Chr4	1858326	1858381	56	LOC_Os04g04020
Insertion	Chr4	4773197	4773198	2
Insertion	Chr4	4795806	4795807	2
Insertion	Chr4	9608538	9608538	1
Insertion	Chr5	24432561	24432561	1
Insertion	Chr5	3911666	3911666	1
Insertion	Chr6	6873516	6873516	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	420415	788888	LOC_Os09g02110
Inversion	Chr9	1002037	1005566	LOC_Os09g02420

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr2	26612908	Chr1	38293885
Translocation	Chr2	26617085	Chr1	38293877	LOC_Os02g44090

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