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Mutant Information

Mutant Name	W463-2-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W463-2-1 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	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: 41

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1346163	T-A	HET	UTR_5_PRIME
SBS	Chr1	182278	T-A	HOMO	INTERGENIC
SBS	Chr1	19640305	G-A	HOMO	INTRON
SBS	Chr1	33937921	A-G	HOMO	SYNONYMOUS_CODING
SBS	Chr1	37251009	T-A	HET	INTERGENIC
SBS	Chr1	41165769	C-T	HET	INTERGENIC
SBS	Chr1	7600545	T-A	HOMO	INTERGENIC
SBS	Chr10	14666507	G-T	HOMO	INTERGENIC
SBS	Chr10	14666508	A-T	HOMO	INTERGENIC
SBS	Chr10	20995899	T-C	HET	INTERGENIC
SBS	Chr11	671033	G-A	HET	INTRON
SBS	Chr11	8583489	G-T	HET	INTERGENIC
SBS	Chr11	9600208	T-C	HOMO	NON_SYNONYMOUS_CODING	LOC_Os11g17230
SBS	Chr12	12293327	T-A	HET	INTERGENIC
SBS	Chr12	13219902	C-T	HET	INTRON
SBS	Chr12	18828029	A-C	HET	INTERGENIC
SBS	Chr12	23480169	C-T	HET	INTERGENIC
SBS	Chr12	7845879	T-G	HET	INTERGENIC
SBS	Chr2	20119066	A-C	HOMO	INTERGENIC
SBS	Chr2	32629371	C-T	HOMO	INTERGENIC
SBS	Chr3	18111688	T-A	HOMO	UTR_5_PRIME
SBS	Chr3	23960800	C-T	HET	INTRON
SBS	Chr3	24401311	C-G	HET	UTR_3_PRIME
SBS	Chr3	26478365	C-T	HET	INTERGENIC
SBS	Chr3	31563434	C-T	HET	SYNONYMOUS_CODING
SBS	Chr3	36164513	G-T	HET	INTERGENIC
SBS	Chr4	8910473	G-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g16400
SBS	Chr5	13819575	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os05g23990
SBS	Chr5	17411746	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g30090
SBS	Chr5	6432165	T-C	HOMO	INTRON
SBS	Chr5	9580956	A-C	HOMO	INTERGENIC
SBS	Chr6	12595622	G-C	HOMO	INTERGENIC
SBS	Chr7	1097667	C-T	HOMO	INTRON
SBS	Chr7	26305301	T-G	HOMO	INTRON
SBS	Chr8	16988827	C-A	HOMO	UTR_5_PRIME
SBS	Chr8	22747290	T-G	HOMO	INTERGENIC
SBS	Chr8	26636302	C-A	HOMO	INTERGENIC
SBS	Chr8	27882322	C-G	HOMO	INTERGENIC
SBS	Chr9	12211837	C-T	HET	INTERGENIC
SBS	Chr9	5384320	G-A	HET	INTERGENIC
SBS	Chr9	5540581	T-C	HET	INTERGENIC

Deletions: 24

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	2319385	2319402	17
Deletion	Chr8	3339205	3339206	1
Deletion	Chr5	5274532	5274535	3
Deletion	Chr5	6416410	6416421	11
Deletion	Chr4	7278748	7278751	3
Deletion	Chr8	7447379	7447380	1
Deletion	Chr1	10020019	10020046	27	LOC_Os01g17420
Deletion	Chr6	13061660	13061671	11	LOC_Os06g22470
Deletion	Chr6	13960248	13960250	2	LOC_Os06g23890
Deletion	Chr6	13962001	14255000	293000	44
Deletion	Chr2	14693150	14693327	177
Deletion	Chr6	15409840	15409850	10
Deletion	Chr7	16478029	16478095	66	LOC_Os07g28210
Deletion	Chr11	17326621	17326628	7
Deletion	Chr3	18144507	18144620	113
Deletion	Chr1	18623503	18623538	35
Deletion	Chr1	19640284	19640296	12
Deletion	Chr9	21689475	21689491	16
Deletion	Chr1	21759427	21759428	1
Deletion	Chr3	23140818	23140819	1
Deletion	Chr5	23279078	23279085	7
Deletion	Chr2	25308797	25308799	2
Deletion	Chr11	25360006	25360016	10	LOC_Os11g42100
Deletion	Chr2	31061178	31061184	6

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	40840114	40840116	3
Insertion	Chr12	1185381	1185381	1
Insertion	Chr3	17832414	17832420	7	LOC_Os03g31300
Insertion	Chr6	29538984	29538984	1	LOC_Os06g48810
Insertion	Chr7	22523286	22523291	6
Insertion	Chr7	24934517	24934519	3	LOC_Os07g41600

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	10024452	10807548	2
Inversion	Chr1	10276223	10807534	LOC_Os01g19130
Inversion	Chr2	32559957	33310829	LOC_Os02g53180
Inversion	Chr2	32559969	33310850	LOC_Os02g53180

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	25539245	Chr1	40624405

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