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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

Variant Information

Single base substitutions: 39

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 418225 A-G Homo INTERGENIC
SBS Chr1 6447708 A-G Hetero INTERGENIC
SBS Chr1 6686745 C-T Hetero INTERGENIC
SBS Chr1 31539054 G-A Homo INTERGENIC
SBS Chr2 15459719 G-A Homo INTERGENIC
SBS Chr2 27199660 T-A Hetero INTERGENIC
SBS Chr2 29709756 G-A Homo INTERGENIC
SBS Chr2 30625954 T-A Homo START_GAINED
SBS Chr3 4209573 A-C Hetero NON_SYNONYMOUS_CODING OsKitaake03g059700
SBS Chr3 14038067 T-A Homo INTERGENIC
SBS Chr3 16955448 C-T Homo INTRON
SBS Chr3 19886385 C-T Hetero INTERGENIC
SBS Chr3 23768686 A-T Homo INTERGENIC
SBS Chr3 36851006 G-T Hetero INTERGENIC
SBS Chr4 3612045 C-T Hetero INTERGENIC
SBS Chr4 7116876 T-G Hetero INTERGENIC
SBS Chr4 11620544 G-A Hetero INTERGENIC
SBS Chr4 17017062 C-T Hetero INTERGENIC
SBS Chr4 17127295 C-T Hetero INTERGENIC
SBS Chr4 22615739 C-T Hetero INTERGENIC
SBS Chr4 24717113 T-C Hetero INTERGENIC
SBS Chr5 8498936 C-T Homo INTERGENIC
SBS Chr6 2663243 C-T Homo INTERGENIC
SBS Chr6 4789219 A-T Homo INTERGENIC
SBS Chr6 28225912 C-T Homo INTERGENIC
SBS Chr7 18803397 A-G Homo INTERGENIC
SBS Chr7 27512813 A-T Homo INTRON
SBS Chr8 28665077 G-A Homo INTERGENIC
SBS Chr9 10489499 T-C Homo INTERGENIC
SBS Chr9 20334164 T-G Hetero INTRON
SBS Chr9 21726071 A-T Homo NON_SYNONYMOUS_CODING OsKitaake09g191500
SBS Chr10 1742585 A-G Homo INTERGENIC
SBS Chr10 1744244 C-A Homo INTERGENIC
SBS Chr10 16614219 A-T Hetero INTERGENIC
SBS Chr11 17002611 G-C Hetero NON_SYNONYMOUS_CODING OsKitaake11g132900
SBS Chr11 27393594 G-A Homo INTERGENIC
SBS Chr12 1981510 C-T Homo INTERGENIC
SBS Chr12 10008886 C-A Homo UTR_3_PRIME
SBS Chr12 14313985 G-A Homo INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr8 241582 241584 2
Deletion Chr8 368726 368727 1 OsKitaake08g005400
Deletion Chr9 8790275 8790290 15
Deletion Chr8 11991019 11991021 2
Deletion Chr11 13587115 13587195 80
Deletion Chr2 13748490 13748504 14
Deletion Chr4 20495057 20495059 2
Deletion Chr12 20647820 20647827 7
Deletion Chr5 22802244 22802247 3
Deletion Chr12 24601579 24601580 1
Deletion Chr1 24907702 24907706 4
Deletion Chr6 26785861 26785881 20
Deletion Chr7 29045379 29045390 11
Deletion Chr4 30109871 30109878 7 OsKitaake04g231100
Deletion Chr1 32791359 32791484 125

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 42386957 42386960 2
Insertion Chr6 1344386 1344389 2
Insertion Chr12 26679562 26679566 3
Insertion Chr11 18736078 18736082 3
Insertion Chr12 14489846 14489848 1

Translocations: 3

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 1741008 Chr9 15949244
Translocation Chr3 31798031 Chr2 1638929
Translocation Chr3 31798046 Chr2 1638294

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	418225	A-G	Homo	INTERGENIC
SBS	Chr1	6447708	A-G	Hetero	INTERGENIC
SBS	Chr1	6686745	C-T	Hetero	INTERGENIC
SBS	Chr1	31539054	G-A	Homo	INTERGENIC
SBS	Chr2	15459719	G-A	Homo	INTERGENIC
SBS	Chr2	27199660	T-A	Hetero	INTERGENIC
SBS	Chr2	29709756	G-A	Homo	INTERGENIC
SBS	Chr2	30625954	T-A	Homo	START_GAINED
SBS	Chr3	4209573	A-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g059700
SBS	Chr3	14038067	T-A	Homo	INTERGENIC
SBS	Chr3	16955448	C-T	Homo	INTRON
SBS	Chr3	19886385	C-T	Hetero	INTERGENIC
SBS	Chr3	23768686	A-T	Homo	INTERGENIC
SBS	Chr3	36851006	G-T	Hetero	INTERGENIC
SBS	Chr4	3612045	C-T	Hetero	INTERGENIC
SBS	Chr4	7116876	T-G	Hetero	INTERGENIC
SBS	Chr4	11620544	G-A	Hetero	INTERGENIC
SBS	Chr4	17017062	C-T	Hetero	INTERGENIC
SBS	Chr4	17127295	C-T	Hetero	INTERGENIC
SBS	Chr4	22615739	C-T	Hetero	INTERGENIC
SBS	Chr4	24717113	T-C	Hetero	INTERGENIC
SBS	Chr5	8498936	C-T	Homo	INTERGENIC
SBS	Chr6	2663243	C-T	Homo	INTERGENIC
SBS	Chr6	4789219	A-T	Homo	INTERGENIC
SBS	Chr6	28225912	C-T	Homo	INTERGENIC
SBS	Chr7	18803397	A-G	Homo	INTERGENIC
SBS	Chr7	27512813	A-T	Homo	INTRON
SBS	Chr8	28665077	G-A	Homo	INTERGENIC
SBS	Chr9	10489499	T-C	Homo	INTERGENIC
SBS	Chr9	20334164	T-G	Hetero	INTRON
SBS	Chr9	21726071	A-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake09g191500
SBS	Chr10	1742585	A-G	Homo	INTERGENIC
SBS	Chr10	1744244	C-A	Homo	INTERGENIC
SBS	Chr10	16614219	A-T	Hetero	INTERGENIC
SBS	Chr11	17002611	G-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g132900
SBS	Chr11	27393594	G-A	Homo	INTERGENIC
SBS	Chr12	1981510	C-T	Homo	INTERGENIC
SBS	Chr12	10008886	C-A	Homo	UTR_3_PRIME
SBS	Chr12	14313985	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr8	241582	241584	2
Deletion	Chr8	368726	368727	1	OsKitaake08g005400
Deletion	Chr9	8790275	8790290	15
Deletion	Chr8	11991019	11991021	2
Deletion	Chr11	13587115	13587195	80
Deletion	Chr2	13748490	13748504	14
Deletion	Chr4	20495057	20495059	2
Deletion	Chr12	20647820	20647827	7
Deletion	Chr5	22802244	22802247	3
Deletion	Chr12	24601579	24601580	1
Deletion	Chr1	24907702	24907706	4
Deletion	Chr6	26785861	26785881	20
Deletion	Chr7	29045379	29045390	11
Deletion	Chr4	30109871	30109878	7	OsKitaake04g231100
Deletion	Chr1	32791359	32791484	125

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	1741008	Chr9	15949244
Translocation	Chr3	31798031	Chr2	1638929
Translocation	Chr3	31798046	Chr2	1638294

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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

Chromosome

Position 2

Number of Genes