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Mutant Information

Mutant Name	FN1642-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1642-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: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: 21

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	21678456	A-G	HET	INTERGENIC
SBS	Chr1	21738075	C-A	HET	SYNONYMOUS_CODING
SBS	Chr1	29436093	A-T	Homo	UTR_3_PRIME
SBS	Chr1	36740071	A-T	HET	INTERGENIC
SBS	Chr11	10678648	G-C	Homo	NON_SYNONYMOUS_CODING	LOC_Os11g18810
SBS	Chr11	27481699	C-T	HET	INTERGENIC
SBS	Chr12	23779255	G-A	HET	INTERGENIC
SBS	Chr2	15422972	G-C	HET	INTERGENIC
SBS	Chr2	17652990	C-T	HET	INTERGENIC
SBS	Chr2	18013481	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g30290
SBS	Chr4	12739130	C-T	HET	INTERGENIC
SBS	Chr5	5337886	C-T	HET	INTRON
SBS	Chr6	23951540	G-T	HET	INTERGENIC
SBS	Chr6	7092155	A-T	Homo	INTERGENIC
SBS	Chr7	2050255	C-A	Homo	INTERGENIC
SBS	Chr7	23986694	C-T	Homo	INTRON
SBS	Chr8	19859557	C-T	HET	INTERGENIC
SBS	Chr8	2176948	G-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os08g04440
SBS	Chr9	13052172	C-G	HET	INTERGENIC
SBS	Chr9	1407066	G-A	Homo	INTERGENIC
SBS	Chr9	6456551	C-A	Homo	INTERGENIC

Deletions: 28

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	683050	683064	14
Deletion	Chr1	3458219	3458222	3	LOC_Os01g07330
Deletion	Chr4	4560371	4560392	21
Deletion	Chr6	4791139	4791163	24
Deletion	Chr5	5274454	5274472	18	LOC_Os05g09400
Deletion	Chr8	7901863	7901867	4
Deletion	Chr9	7979376	7979377	1
Deletion	Chr12	8039056	8039060	4
Deletion	Chr1	9981097	9981103	6
Deletion	Chr11	10180425	10180428	3
Deletion	Chr5	10737612	10737628	16
Deletion	Chr6	11919258	11919259	1	LOC_Os06g20700
Deletion	Chr9	12018240	12018241	1
Deletion	Chr1	12161491	12161494	3	LOC_Os01g21670
Deletion	Chr4	12533985	12533996	11
Deletion	Chr7	14582974	14582975	1
Deletion	Chr10	15322316	15322317	1
Deletion	Chr8	15956882	15956898	16
Deletion	Chr3	16037106	16037110	4
Deletion	Chr4	17118476	17118480	4
Deletion	Chr4	17368642	17368644	2
Deletion	Chr5	19662256	19662258	2	LOC_Os05g33470
Deletion	Chr3	19880001	19917000	37000	5
Deletion	Chr5	21900554	21900555	1
Deletion	Chr2	25140429	25140439	10
Deletion	Chr4	30228629	30228631	2
Deletion	Chr4	30873054	30873057	3
Deletion	Chr1	40330953	40330954	1

Insertions: 11

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	26582134	26582134	1
Insertion	Chr10	2066466	2066467	2
Insertion	Chr10	22972836	22972853	18
Insertion	Chr2	34740372	34740372	1
Insertion	Chr5	19071858	19071860	3	LOC_Os05g32580
Insertion	Chr5	3911666	3911666	1
Insertion	Chr6	24259389	24259389	1
Insertion	Chr7	23790704	23790705	2
Insertion	Chr8	26530008	26530008	1
Insertion	Chr9	19609175	19609219	45
Insertion	Chr9	9659691	9659755	65

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	16280887	16567029
Inversion	Chr9	16284026	16567030	LOC_Os09g26800

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr7	15975808	Chr6	14508879	2
Translocation	Chr7	15979283	Chr6	14508904	2
Translocation	Chr10	18595586	Chr7	27778996	LOC_Os10g34820
Translocation	Chr6	23038185	Chr2	18483435
Translocation	Chr8	27085296	Chr7	15971068
Translocation	Chr8	27085313	Chr7	15975852	LOC_Os07g27420

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