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Mutant Information

Mutant Name	W472-5-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W472-5-1 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: 38

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	30735281	G-A	HOMO	INTERGENIC
SBS	Chr1	403521	A-G	HOMO	INTERGENIC
SBS	Chr1	6344550	A-G	HET	INTERGENIC
SBS	Chr1	6583412	C-T	HET	INTERGENIC
SBS	Chr10	15910808	A-T	HET	INTERGENIC
SBS	Chr10	1674775	A-G	HOMO	INTRON
SBS	Chr10	1676434	C-A	HET	INTERGENIC
SBS	Chr11	16753759	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os11g28950
SBS	Chr12	10420240	C-A	HOMO	INTRON
SBS	Chr12	14643541	G-A	HOMO	INTRON
SBS	Chr12	1898014	C-T	HOMO	INTRON
SBS	Chr2	15335829	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os02g26100
SBS	Chr2	26484784	T-A	HET	INTERGENIC
SBS	Chr2	28912282	G-A	HOMO	INTERGENIC
SBS	Chr2	29920515	T-A	HOMO	INTERGENIC
SBS	Chr3	13836002	T-A	HOMO	INTERGENIC
SBS	Chr3	16553074	C-T	HOMO	INTRON
SBS	Chr3	19468537	C-T	HET	INTRON
SBS	Chr3	23100797	A-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os03g41540
SBS	Chr3	35511042	G-T	HET	INTERGENIC
SBS	Chr3	4084029	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os03g07990
SBS	Chr4	10934008	G-A	HET	INTRON
SBS	Chr4	15028846	A-T	HET	INTERGENIC
SBS	Chr4	16301905	C-T	HET	INTERGENIC
SBS	Chr4	16412181	C-T	HET	INTERGENIC
SBS	Chr4	21523172	C-T	HET	INTERGENIC
SBS	Chr4	3222381	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g06200
SBS	Chr4	6375813	T-G	HET	INTRON
SBS	Chr5	8133880	C-T	HOMO	INTRON
SBS	Chr6	2617627	C-T	HOMO	INTRON
SBS	Chr6	28489974	C-T	HOMO	UTR_3_PRIME
SBS	Chr6	4673354	A-T	HOMO	INTRON
SBS	Chr7	18923052	A-G	HOMO	INTERGENIC
SBS	Chr7	27554328	A-T	HOMO	INTRON
SBS	Chr8	27783867	G-A	HOMO	INTRON
SBS	Chr9	10913480	T-C	HOMO	INTERGENIC
SBS	Chr9	20536862	T-G	HET	INTRON
SBS	Chr9	21909834	A-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g38010

Deletions: 20

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	562715	562723	8
Deletion	Chr5	3455060	3455063	3
Deletion	Chr6	4696963	4696964	1
Deletion	Chr7	5940519	5940592	73
Deletion	Chr3	6141620	6141641	21
Deletion	Chr1	6235578	6235580	2
Deletion	Chr9	9175711	9175726	15
Deletion	Chr8	11752416	11752418	2
Deletion	Chr2	13571953	13571967	14
Deletion	Chr10	14665197	14665209	12
Deletion	Chr8	14717097	14717130	33	LOC_Os08g24380
Deletion	Chr6	14971514	14971515	1
Deletion	Chr12	21160695	21160702	7
Deletion	Chr5	22680801	22680804	3
Deletion	Chr1	24264286	24264290	4
Deletion	Chr12	25051579	25051580	1
Deletion	Chr2	26475372	26479578	4206	LOC_Os02g43850
Deletion	Chr6	27135987	27136007	20	LOC_Os06g44890
Deletion	Chr4	28814439	28814446	7	LOC_Os04g48330
Deletion	Chr7	29062534	29062545	11

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr12	295499	295499	1
Insertion	Chr2	4540197	4540197	1
Insertion	Chr6	1309350	1309351	2
Insertion	Chr8	3831104	3831104	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	1773654	1780676	LOC_Os08g03730
Inversion	Chr4	21521469	31774983

Translocations: 2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	1673199	Chr9	16247205	2
Translocation	Chr3	30629740	Chr2	1615466

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