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Mutant Information

Mutant Name	W278-3-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W278-3-1 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 4199830 C-T Homo INTERGENIC
SBS Chr1 9635762 A-C Hetero INTERGENIC
SBS Chr1 13227344 C-T Homo INTERGENIC
SBS Chr1 14116986 C-T Hetero INTERGENIC
SBS Chr1 22249689 C-T Hetero INTERGENIC
SBS Chr2 238968 C-A Homo INTERGENIC
SBS Chr2 7169760 T-A Homo INTERGENIC
SBS Chr2 18634967 C-T Homo INTRON
SBS Chr2 31855791 T-G Homo NON_SYNONYMOUS_CODING OsKitaake02g324700
SBS Chr3 7490468 A-C Hetero INTERGENIC
SBS Chr3 9059530 T-A Hetero INTERGENIC
SBS Chr3 15802844 C-T Hetero INTERGENIC
SBS Chr3 22998687 T-G Homo INTERGENIC
SBS Chr3 23145322 C-A Hetero INTERGENIC
SBS Chr3 33526219 C-A Hetero INTRON
SBS Chr4 7214725 C-T Hetero INTERGENIC
SBS Chr4 18255606 C-T Hetero INTERGENIC
SBS Chr4 26749128 G-A Hetero INTERGENIC
SBS Chr4 35321792 T-C Hetero INTERGENIC
SBS Chr5 16021288 G-A Hetero INTERGENIC
SBS Chr5 16924724 T-C Hetero INTERGENIC
SBS Chr6 14896765 G-A Homo INTERGENIC
SBS Chr6 20698994 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake06g185200
SBS Chr6 21418543 C-T Hetero INTERGENIC
SBS Chr6 26674461 A-T Hetero INTERGENIC
SBS Chr7 825116 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake07g010400
SBS Chr7 14871237 A-T Homo INTERGENIC
SBS Chr8 11493596 T-A Homo INTERGENIC
SBS Chr10 9100375 C-T Homo INTERGENIC
SBS Chr11 4588180 G-A Hetero INTERGENIC
SBS Chr11 6012604 C-T Hetero INTRON
SBS Chr11 11362093 C-G Hetero INTERGENIC
SBS Chr11 11381476 T-C Hetero INTERGENIC
SBS Chr11 18641803 A-G Hetero INTERGENIC
SBS Chr11 20416676 T-C Homo INTERGENIC
SBS Chr11 28247928 G-C Hetero INTERGENIC
SBS Chr12 4475174 G-A Hetero INTERGENIC
SBS Chr12 4828192 G-T Hetero INTERGENIC
SBS Chr12 13641976 G-A Hetero INTERGENIC

Deletions: 21

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 3631776 3631778 2 OsKitaake09g018900
Deletion Chr3 4440892 4440894 2
Deletion Chr12 5390983 5390987 4
Deletion Chr4 5549163 5549531 368
Deletion Chr6 7290237 7290238 1
Deletion Chr7 9124555 9124556 1
Deletion Chr5 9646175 9646179 4
Deletion Chr6 11352408 11352411 3
Deletion Chr12 11636138 11636143 5
Deletion Chr6 12520460 12520462 2
Deletion Chr9 13425575 13425579 4
Deletion Chr6 14048346 14048357 11
Deletion Chr11 16954382 16954383 1
Deletion Chr12 17144520 17144525 5
Deletion Chr11 18690474 18690482 8
Deletion Chr2 20550466 20550788 322
Deletion Chr2 21559583 21559585 2
Deletion Chr7 23512970 23512981 11
Deletion Chr6 28207163 28207164 1 OsKitaake06g257200
Deletion Chr1 29396098 29396099 1
Deletion Chr2 32625329 32625335 6

Insertions: 1

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 22369061 22369065 3

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4199830	C-T	Homo	INTERGENIC
SBS	Chr1	9635762	A-C	Hetero	INTERGENIC
SBS	Chr1	13227344	C-T	Homo	INTERGENIC
SBS	Chr1	14116986	C-T	Hetero	INTERGENIC
SBS	Chr1	22249689	C-T	Hetero	INTERGENIC
SBS	Chr2	238968	C-A	Homo	INTERGENIC
SBS	Chr2	7169760	T-A	Homo	INTERGENIC
SBS	Chr2	18634967	C-T	Homo	INTRON
SBS	Chr2	31855791	T-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake02g324700
SBS	Chr3	7490468	A-C	Hetero	INTERGENIC
SBS	Chr3	9059530	T-A	Hetero	INTERGENIC
SBS	Chr3	15802844	C-T	Hetero	INTERGENIC
SBS	Chr3	22998687	T-G	Homo	INTERGENIC
SBS	Chr3	23145322	C-A	Hetero	INTERGENIC
SBS	Chr3	33526219	C-A	Hetero	INTRON
SBS	Chr4	7214725	C-T	Hetero	INTERGENIC
SBS	Chr4	18255606	C-T	Hetero	INTERGENIC
SBS	Chr4	26749128	G-A	Hetero	INTERGENIC
SBS	Chr4	35321792	T-C	Hetero	INTERGENIC
SBS	Chr5	16021288	G-A	Hetero	INTERGENIC
SBS	Chr5	16924724	T-C	Hetero	INTERGENIC
SBS	Chr6	14896765	G-A	Homo	INTERGENIC
SBS	Chr6	20698994	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g185200
SBS	Chr6	21418543	C-T	Hetero	INTERGENIC
SBS	Chr6	26674461	A-T	Hetero	INTERGENIC
SBS	Chr7	825116	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake07g010400
SBS	Chr7	14871237	A-T	Homo	INTERGENIC
SBS	Chr8	11493596	T-A	Homo	INTERGENIC
SBS	Chr10	9100375	C-T	Homo	INTERGENIC
SBS	Chr11	4588180	G-A	Hetero	INTERGENIC
SBS	Chr11	6012604	C-T	Hetero	INTRON
SBS	Chr11	11362093	C-G	Hetero	INTERGENIC
SBS	Chr11	11381476	T-C	Hetero	INTERGENIC
SBS	Chr11	18641803	A-G	Hetero	INTERGENIC
SBS	Chr11	20416676	T-C	Homo	INTERGENIC
SBS	Chr11	28247928	G-C	Hetero	INTERGENIC
SBS	Chr12	4475174	G-A	Hetero	INTERGENIC
SBS	Chr12	4828192	G-T	Hetero	INTERGENIC
SBS	Chr12	13641976	G-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	3631776	3631778	2	OsKitaake09g018900
Deletion	Chr3	4440892	4440894	2
Deletion	Chr12	5390983	5390987	4
Deletion	Chr4	5549163	5549531	368
Deletion	Chr6	7290237	7290238	1
Deletion	Chr7	9124555	9124556	1
Deletion	Chr5	9646175	9646179	4
Deletion	Chr6	11352408	11352411	3
Deletion	Chr12	11636138	11636143	5
Deletion	Chr6	12520460	12520462	2
Deletion	Chr9	13425575	13425579	4
Deletion	Chr6	14048346	14048357	11
Deletion	Chr11	16954382	16954383	1
Deletion	Chr12	17144520	17144525	5
Deletion	Chr11	18690474	18690482	8
Deletion	Chr2	20550466	20550788	322
Deletion	Chr2	21559583	21559585	2
Deletion	Chr7	23512970	23512981	11
Deletion	Chr6	28207163	28207164	1	OsKitaake06g257200
Deletion	Chr1	29396098	29396099	1
Deletion	Chr2	32625329	32625335	6

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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