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Mutant Information

Mutant Name	W42-1-3S-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W42-1-3S-1 Alignment File
Seed Availability	No
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 43

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12972454	A-G	HET	INTRON
SBS	Chr1	22969444	T-G	HOMO	INTERGENIC
SBS	Chr1	30498492	T-C	HOMO	INTERGENIC
SBS	Chr2	2082542	G-A	HOMO	UTR_3_PRIME
SBS	Chr2	6418512	G-A	HOMO	INTRON
SBS	Chr2	14110163	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g24320
SBS	Chr2	14226688	A-G	HET	INTRON
SBS	Chr2	20792319	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g34660
SBS	Chr2	30360195	G-C	HET	INTERGENIC
SBS	Chr2	33989338	T-A	HET	INTERGENIC
SBS	Chr3	3819347	C-T	HOMO	INTRON
SBS	Chr3	3819350	G-A	HOMO	INTRON
SBS	Chr4	6542135	A-C	HOMO	INTERGENIC
SBS	Chr4	13317262	T-A	HET	INTERGENIC
SBS	Chr4	13618613	G-C	HET	INTERGENIC
SBS	Chr4	13888214	G-A	HOMO	INTERGENIC
SBS	Chr4	17251170	C-G	HET	INTERGENIC
SBS	Chr4	19800939	G-T	HET	INTERGENIC
SBS	Chr4	25966891	T-G	HET	INTRON
SBS	Chr4	33525216	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os04g56230
SBS	Chr4	33876539	C-T	HOMO	INTERGENIC
SBS	Chr5	1965199	A-G	HOMO	INTERGENIC
SBS	Chr5	19989421	T-A	HOMO	INTRON
SBS	Chr5	26229666	A-T	HET	INTERGENIC
SBS	Chr5	26955732	C-T	HET	UTR_5_PRIME
SBS	Chr6	7366681	G-T	HET	INTERGENIC
SBS	Chr6	10121500	T-G	HET	INTRON
SBS	Chr7	114251	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g01190
SBS	Chr7	1278230	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os07g03230
SBS	Chr7	4388109	A-T	HET	INTERGENIC
SBS	Chr7	9410592	C-T	HOMO	INTERGENIC
SBS	Chr8	3005370	A-G	HOMO	INTERGENIC
SBS	Chr8	8359394	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os08g13950
SBS	Chr8	14680037	A-T	HOMO	INTERGENIC
SBS	Chr8	22384296	G-C	HET	INTRON
SBS	Chr9	16441924	G-A	HET	INTRON
SBS	Chr10	137555	C-T	HOMO	INTERGENIC
SBS	Chr10	11615058	T-A	HOMO	INTERGENIC
SBS	Chr10	12606323	A-G	HOMO	SYNONYMOUS_CODING
SBS	Chr10	15694273	A-T	HOMO	INTERGENIC
SBS	Chr10	15954531	G-T	HET	INTERGENIC
SBS	Chr11	25251153	A-C	HOMO	INTRON
SBS	Chr11	25277760	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g42030

Deletions: 23

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	72524	72525	1
Deletion	Chr4	98826	98842	16
Deletion	Chr3	213826	213829	3
Deletion	Chr3	3647018	3647026	8	LOC_Os03g07130
Deletion	Chr8	6453925	6453929	4	LOC_Os08g10940
Deletion	Chr8	6523397	6523398	1
Deletion	Chr10	7622296	7622308	12
Deletion	Chr4	10264003	10264012	9
Deletion	Chr12	11341748	11341749	1
Deletion	Chr7	13302011	13302012	1
Deletion	Chr7	13720364	13720367	3
Deletion	Chr1	18839489	18839499	10
Deletion	Chr7	20360528	20360545	17
Deletion	Chr11	20499001	20626000	127000	18
Deletion	Chr11	20633001	20663000	30000	6
Deletion	Chr11	20667001	20864000	197000	33
Deletion	Chr4	21659274	21659288	14
Deletion	Chr1	22969672	22969673	1
Deletion	Chr1	26327989	26327991	2
Deletion	Chr3	27094736	27094738	2
Deletion	Chr1	28634340	28634775	435
Deletion	Chr4	28679863	28693250	13387	LOC_Os04g48180
Deletion	Chr4	33876542	33876549	7

Insertions: 7

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr4	31443242	31443256	15	LOC_Os04g52810
Insertion	Chr6	22127887	22127888	2
Insertion	Chr9	9495466	9495467	2
Insertion	Chr11	15152328	15152328	1
Insertion	Chr11	18493101	18493101	1
Insertion	Chr2	34603953	34603953	1
Insertion	Chr9	22500019	22500019	1

Inversions: 5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	3371807	3977479	LOC_Os03g06670
Inversion	Chr9	16353318	16441923	LOC_Os09g27030
Inversion	Chr9	16353360	16488856	LOC_Os09g27100
Inversion	Chr11	19517658	20499240	LOC_Os11g34970
Inversion	Chr11	20811535	20865122	LOC_Os11g35510

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	8864140	Chr4	28679874
Translocation	Chr5	8864141	Chr1	28634768
Translocation	Chr9	16488835	Chr8	2726760	2
Translocation	Chr9	19456620	Chr8	2727712	2
Translocation	Chr4	28684629	Chr1	28634350

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