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Mutant Information

Mutant Name	W466-5-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W466-5-1 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

Variant Information

Single base substitutions: 65

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 197966 G-T Hetero INTERGENIC
SBS Chr1 9097202 T-C Hetero INTERGENIC
SBS Chr1 17363086 C-G Hetero INTERGENIC
SBS Chr1 18055599 C-A Hetero INTERGENIC
SBS Chr1 40872165 C-T Hetero INTERGENIC
SBS Chr2 2826146 T-C Hetero INTERGENIC
SBS Chr2 12767516 G-C Homo INTERGENIC
SBS Chr2 15868698 A-G Hetero INTERGENIC
SBS Chr2 23484261 T-G Hetero INTERGENIC
SBS Chr3 3116601 A-T Hetero INTERGENIC
SBS Chr3 3433764 G-A Hetero INTERGENIC
SBS Chr3 5300423 T-C Hetero INTERGENIC
SBS Chr3 8861726 G-A Hetero INTERGENIC
SBS Chr3 19865400 G-A Hetero INTERGENIC
SBS Chr3 26125100 C-T Hetero INTERGENIC
SBS Chr3 26125101 A-T Hetero INTERGENIC
SBS Chr3 26548360 T-A Hetero INTERGENIC
SBS Chr3 26767679 C-A Hetero INTERGENIC
SBS Chr3 27688417 C-T Hetero INTERGENIC
SBS Chr3 29138032 G-A Homo INTERGENIC
SBS Chr3 34194484 A-G Hetero INTERGENIC
SBS Chr3 36142901 A-G Hetero INTRON
SBS Chr3 37139973 T-A Hetero INTERGENIC
SBS Chr4 2777290 C-G Hetero INTERGENIC
SBS Chr4 4570455 G-A Hetero INTERGENIC
SBS Chr4 4713567 C-T Hetero INTERGENIC
SBS Chr4 14332032 T-A Hetero INTERGENIC
SBS Chr4 27810930 G-A Hetero INTERGENIC
SBS Chr4 28824788 G-A Hetero INTERGENIC
SBS Chr5 3413410 C-T Hetero INTERGENIC
SBS Chr5 7650762 T-G Hetero INTERGENIC
SBS Chr5 9359626 G-A Hetero INTERGENIC
SBS Chr5 18834287 A-G Hetero INTRON
SBS Chr5 29010275 G-T Hetero INTERGENIC
SBS Chr6 21549155 T-C Hetero INTERGENIC
SBS Chr6 22971019 A-C Hetero INTERGENIC
SBS Chr6 23860990 C-A Homo INTRON
SBS Chr7 434127 G-T Hetero INTRON
SBS Chr7 11800863 C-T Homo INTERGENIC
SBS Chr7 14557614 G-A Hetero INTERGENIC
SBS Chr8 906758 G-C Hetero INTERGENIC
SBS Chr8 15681944 A-G Hetero INTERGENIC
SBS Chr8 16018028 C-A Hetero INTRON
SBS Chr8 16746288 T-C Hetero INTERGENIC
SBS Chr8 22538571 G-A Hetero INTERGENIC
SBS Chr9 56017 C-G Hetero INTERGENIC
SBS Chr9 4107018 C-G Hetero INTERGENIC
SBS Chr9 4710394 C-T Hetero INTERGENIC
SBS Chr9 4872561 C-T Homo INTERGENIC
SBS Chr9 6949378 T-A Hetero NON_SYNONYMOUS_CODING OsKitaake09g039700
SBS Chr9 14937620 G-A Hetero INTERGENIC
SBS Chr9 18741266 A-T Hetero INTERGENIC
SBS Chr9 18741267 A-T Hetero INTERGENIC
SBS Chr10 11764629 G-C Homo INTERGENIC
SBS Chr10 18679574 C-A Hetero INTERGENIC
SBS Chr11 654306 A-T Homo INTERGENIC
SBS Chr11 11960885 G-A Homo INTERGENIC
SBS Chr11 20170841 C-T Homo INTERGENIC
SBS Chr11 25454280 T-G Hetero INTERGENIC
SBS Chr11 25547074 C-T Hetero INTRON
SBS Chr11 26108638 T-G Homo NON_SYNONYMOUS_CODING OsKitaake11g210900
SBS Chr11 26905312 C-A Homo INTERGENIC
SBS Chr12 6442371 G-A Homo NON_SYNONYMOUS_CODING OsKitaake12g074200
SBS Chr12 18115281 A-C Hetero INTERGENIC
SBS Chr12 19724863 T-C Hetero INTERGENIC

Deletions: 14

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 86160 86161 1
Deletion Chr11 2375977 2375979 2
Deletion Chr4 2405314 2405316 2
Deletion Chr10 2852348 2852350 2
Deletion Chr8 7238119 7238205 86
Deletion Chr4 9090415 9090416 1
Deletion Chr3 11109893 11109897 4
Deletion Chr12 12099489 12099490 1 2
Deletion Chr12 15312620 15312711 91
Deletion Chr8 16056001 16068000 11999
Deletion Chr3 16139065 16139067 2 OsKitaake03g205800
Deletion Chr3 16739732 16739904 172
Deletion Chr4 30797161 30797169 8
Deletion Chr2 35332312 35332322 10

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 17149870 17149873 2
Insertion Chr10 14700161 14700163 1
Insertion Chr10 18247812 18247815 2
Insertion Chr5 30228616 30228624 7
Insertion Chr11 3383179 3383181 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 15862065 15919038
Inversion Chr2 15862072 15919041

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	197966	G-T	Hetero	INTERGENIC
SBS	Chr1	9097202	T-C	Hetero	INTERGENIC
SBS	Chr1	17363086	C-G	Hetero	INTERGENIC
SBS	Chr1	18055599	C-A	Hetero	INTERGENIC
SBS	Chr1	40872165	C-T	Hetero	INTERGENIC
SBS	Chr2	2826146	T-C	Hetero	INTERGENIC
SBS	Chr2	12767516	G-C	Homo	INTERGENIC
SBS	Chr2	15868698	A-G	Hetero	INTERGENIC
SBS	Chr2	23484261	T-G	Hetero	INTERGENIC
SBS	Chr3	3116601	A-T	Hetero	INTERGENIC
SBS	Chr3	3433764	G-A	Hetero	INTERGENIC
SBS	Chr3	5300423	T-C	Hetero	INTERGENIC
SBS	Chr3	8861726	G-A	Hetero	INTERGENIC
SBS	Chr3	19865400	G-A	Hetero	INTERGENIC
SBS	Chr3	26125100	C-T	Hetero	INTERGENIC
SBS	Chr3	26125101	A-T	Hetero	INTERGENIC
SBS	Chr3	26548360	T-A	Hetero	INTERGENIC
SBS	Chr3	26767679	C-A	Hetero	INTERGENIC
SBS	Chr3	27688417	C-T	Hetero	INTERGENIC
SBS	Chr3	29138032	G-A	Homo	INTERGENIC
SBS	Chr3	34194484	A-G	Hetero	INTERGENIC
SBS	Chr3	36142901	A-G	Hetero	INTRON
SBS	Chr3	37139973	T-A	Hetero	INTERGENIC
SBS	Chr4	2777290	C-G	Hetero	INTERGENIC
SBS	Chr4	4570455	G-A	Hetero	INTERGENIC
SBS	Chr4	4713567	C-T	Hetero	INTERGENIC
SBS	Chr4	14332032	T-A	Hetero	INTERGENIC
SBS	Chr4	27810930	G-A	Hetero	INTERGENIC
SBS	Chr4	28824788	G-A	Hetero	INTERGENIC
SBS	Chr5	3413410	C-T	Hetero	INTERGENIC
SBS	Chr5	7650762	T-G	Hetero	INTERGENIC
SBS	Chr5	9359626	G-A	Hetero	INTERGENIC
SBS	Chr5	18834287	A-G	Hetero	INTRON
SBS	Chr5	29010275	G-T	Hetero	INTERGENIC
SBS	Chr6	21549155	T-C	Hetero	INTERGENIC
SBS	Chr6	22971019	A-C	Hetero	INTERGENIC
SBS	Chr6	23860990	C-A	Homo	INTRON
SBS	Chr7	434127	G-T	Hetero	INTRON
SBS	Chr7	11800863	C-T	Homo	INTERGENIC
SBS	Chr7	14557614	G-A	Hetero	INTERGENIC
SBS	Chr8	906758	G-C	Hetero	INTERGENIC
SBS	Chr8	15681944	A-G	Hetero	INTERGENIC
SBS	Chr8	16018028	C-A	Hetero	INTRON
SBS	Chr8	16746288	T-C	Hetero	INTERGENIC
SBS	Chr8	22538571	G-A	Hetero	INTERGENIC
SBS	Chr9	56017	C-G	Hetero	INTERGENIC
SBS	Chr9	4107018	C-G	Hetero	INTERGENIC
SBS	Chr9	4710394	C-T	Hetero	INTERGENIC
SBS	Chr9	4872561	C-T	Homo	INTERGENIC
SBS	Chr9	6949378	T-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake09g039700
SBS	Chr9	14937620	G-A	Hetero	INTERGENIC
SBS	Chr9	18741266	A-T	Hetero	INTERGENIC
SBS	Chr9	18741267	A-T	Hetero	INTERGENIC
SBS	Chr10	11764629	G-C	Homo	INTERGENIC
SBS	Chr10	18679574	C-A	Hetero	INTERGENIC
SBS	Chr11	654306	A-T	Homo	INTERGENIC
SBS	Chr11	11960885	G-A	Homo	INTERGENIC
SBS	Chr11	20170841	C-T	Homo	INTERGENIC
SBS	Chr11	25454280	T-G	Hetero	INTERGENIC
SBS	Chr11	25547074	C-T	Hetero	INTRON
SBS	Chr11	26108638	T-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake11g210900
SBS	Chr11	26905312	C-A	Homo	INTERGENIC
SBS	Chr12	6442371	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake12g074200
SBS	Chr12	18115281	A-C	Hetero	INTERGENIC
SBS	Chr12	19724863	T-C	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	86160	86161	1
Deletion	Chr11	2375977	2375979	2
Deletion	Chr4	2405314	2405316	2
Deletion	Chr10	2852348	2852350	2
Deletion	Chr8	7238119	7238205	86
Deletion	Chr4	9090415	9090416	1
Deletion	Chr3	11109893	11109897	4
Deletion	Chr12	12099489	12099490	1	2
Deletion	Chr12	15312620	15312711	91
Deletion	Chr8	16056001	16068000	11999
Deletion	Chr3	16139065	16139067	2	OsKitaake03g205800
Deletion	Chr3	16739732	16739904	172
Deletion	Chr4	30797161	30797169	8
Deletion	Chr2	35332312	35332322	10

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	15862065	15919038
Inversion	Chr2	15862072	15919041

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Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Variant Type

Chromosome

Position 1

Position 2

Number of Genes