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Mutant Information

Mutant Name	W247-2-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W247-2-1 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: 34

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	187430	A-T	HET	INTRON
SBS	Chr1	21442377	G-A	HET	INTERGENIC
SBS	Chr1	34530187	T-C	HOMO	INTERGENIC
SBS	Chr10	12526039	A-G	HET	SYNONYMOUS_CODING
SBS	Chr11	13917058	A-C	HOMO	INTERGENIC
SBS	Chr11	421475	C-T	HOMO	INTERGENIC
SBS	Chr12	15225739	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os12g26140
SBS	Chr12	26562552	T-A	HET	INTERGENIC
SBS	Chr2	11644067	G-C	HOMO	INTERGENIC
SBS	Chr2	15474068	G-A	HOMO	INTRON
SBS	Chr2	19471436	A-T	HET	INTERGENIC
SBS	Chr2	26549320	G-T	HET	INTERGENIC
SBS	Chr3	31451198	G-A	HET	INTERGENIC
SBS	Chr3	31550992	T-A	HOMO	INTERGENIC
SBS	Chr3	3506851	G-A	HET	INTRON
SBS	Chr4	18189650	G-A	HOMO	INTERGENIC
SBS	Chr4	22208180	T-G	HET	INTRON
SBS	Chr4	27587980	A-T	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g46510
SBS	Chr4	5980377	T-C	HET	INTERGENIC
SBS	Chr4	7222760	A-G	HET	INTERGENIC
SBS	Chr5	15705919	G-C	HOMO	INTERGENIC
SBS	Chr5	21239966	A-G	HOMO	INTERGENIC
SBS	Chr5	2368620	G-A	HET	INTRON
SBS	Chr5	29658542	G-T	HET	INTRON
SBS	Chr6	9314987	C-T	HOMO	INTERGENIC
SBS	Chr7	10646502	G-A	HET	INTRON
SBS	Chr7	19798629	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g33150
SBS	Chr7	25052934	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g41830
SBS	Chr7	67670	G-A	HOMO	UTR_5_PRIME
SBS	Chr8	20132041	C-G	HOMO	INTRON
SBS	Chr8	21127616	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os08g33780
SBS	Chr8	21331647	C-G	HET	INTERGENIC
SBS	Chr8	3725989	G-A	HET	INTRON
SBS	Chr9	2992485	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os09g06360

Deletions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	163566	163569	3
Deletion	Chr7	864001	1023000	159000	30
Deletion	Chr4	1476313	1476314	1
Deletion	Chr4	1504916	1506057	1141	LOC_Os04g03480
Deletion	Chr8	3726085	3726088	3	LOC_Os08g06600
Deletion	Chr11	4687166	4687189	23
Deletion	Chr6	5563444	5563446	2
Deletion	Chr7	7767148	7767156	8
Deletion	Chr10	9066263	9066264	1
Deletion	Chr12	11126894	11126899	5
Deletion	Chr10	12191565	12191583	18
Deletion	Chr9	12434585	12434586	1
Deletion	Chr8	13057462	13057463	1	LOC_Os08g21810
Deletion	Chr1	13643952	13643957	5
Deletion	Chr5	13959517	13959521	4
Deletion	Chr8	15008001	15040000	32000	7
Deletion	Chr7	17489324	17489327	3
Deletion	Chr1	17564474	17564477	3	2
Deletion	Chr3	23690063	23690064	1
Deletion	Chr2	25900068	25900071	3
Deletion	Chr8	26491772	26492271	499
Deletion	Chr5	29661281	29661325	44	LOC_Os05g51700

Insertions: 4

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	3254413	3254414	2
Insertion	Chr6	22140214	22140215	2
Insertion	Chr7	28510090	28510090	1
Insertion	Chr9	18368026	18368026	1	LOC_Os09g30180

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	21254552	21728807
Inversion	Chr2	22892196	23473294

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr7	1551044	Chr5	22817095	LOC_Os05g38900
Translocation	Chr10	4663965	Chr4	1504927	LOC_Os10g08580
Translocation	Chr12	14725326	Chr4	1506053	LOC_Os04g03480
Translocation	Chr12	14728112	Chr10	4663971	LOC_Os10g08580
Translocation	Chr8	26491767	Chr5	22817054	LOC_Os05g38900
Translocation	Chr8	26492263	Chr7	1022873

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