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Mutant Information

Mutant Name	W138-2-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W138-2-1 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: 36

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	13433954	C-T	HET	INTERGENIC
SBS	Chr1	14258265	T-G	HOMO	INTERGENIC
SBS	Chr1	22019656	G-A	HET	INTERGENIC
SBS	Chr1	32283556	G-A	HOMO	INTERGENIC
SBS	Chr1	42722116	G-T	HOMO	INTERGENIC
SBS	Chr1	7554676	A-T	HOMO	INTERGENIC
SBS	Chr10	14251949	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os10g27040
SBS	Chr10	16077566	G-T	HET	INTERGENIC
SBS	Chr10	16221895	A-G	HET	INTERGENIC
SBS	Chr10	18096746	G-A	HET	INTERGENIC
SBS	Chr10	21611568	A-G	HET	INTRON
SBS	Chr11	12973316	C-G	HET	INTERGENIC
SBS	Chr11	14335540	C-A	HET	UTR_3_PRIME
SBS	Chr11	17260325	C-G	HET	INTRON
SBS	Chr11	17944292	G-T	HOMO	INTRON
SBS	Chr11	8047233	T-C	HET	INTERGENIC
SBS	Chr12	11865316	T-C	HET	INTRON
SBS	Chr12	26828711	C-T	HOMO	INTRON
SBS	Chr12	5181001	C-A	HOMO	INTERGENIC
SBS	Chr12	7498583	C-A	HOMO	INTERGENIC
SBS	Chr2	13290912	G-A	HOMO	INTRON
SBS	Chr2	13987366	A-G	HOMO	UTR_5_PRIME
SBS	Chr3	12830027	C-A	HOMO	INTERGENIC
SBS	Chr3	24567364	C-T	HOMO	SYNONYMOUS_CODING
SBS	Chr3	27964385	G-T	HET	INTERGENIC
SBS	Chr3	7338112	G-A	HOMO	INTERGENIC
SBS	Chr4	11959781	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os04g21210
SBS	Chr4	12783441	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os04g22580
SBS	Chr4	29949417	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os04g50192
SBS	Chr4	33457388	T-C	HET	INTERGENIC
SBS	Chr4	4935401	G-A	HOMO	SYNONYMOUS_CODING
SBS	Chr5	11988951	G-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os05g20430
SBS	Chr5	28700202	G-T	HOMO	INTERGENIC
SBS	Chr6	30871799	C-T	HET	INTRON
SBS	Chr7	14308740	C-T	HET	INTERGENIC
SBS	Chr7	19106180	G-A	HET	INTERGENIC

Deletions: 25

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr3	1102837	1102845	8	2
Deletion	Chr7	1220218	1220219	1
Deletion	Chr12	2653530	2653531	1	LOC_Os12g05760
Deletion	Chr8	2795408	2795416	8
Deletion	Chr3	4583082	4583083	1
Deletion	Chr1	9099151	9099156	5	LOC_Os01g16124
Deletion	Chr10	11012459	11012469	10
Deletion	Chr5	11251687	11251689	2
Deletion	Chr9	12814382	12814384	2
Deletion	Chr7	13170460	13170569	109
Deletion	Chr6	14761307	14761308	1
Deletion	Chr4	15085746	15085762	16
Deletion	Chr2	15966632	15966636	4
Deletion	Chr6	17499979	17499982	3
Deletion	Chr3	18281808	18281820	12
Deletion	Chr2	18401974	18401986	12
Deletion	Chr12	20050528	20050529	1
Deletion	Chr1	21521012	21521013	1
Deletion	Chr1	21734829	21734847	18
Deletion	Chr6	24769168	24769169	1	LOC_Os06g41350
Deletion	Chr5	25710988	25712503	1515
Deletion	Chr2	30443419	30443420	1
Deletion	Chr1	32812551	32825919	13368	2
Deletion	Chr4	33455020	33455032	12
Deletion	Chr1	34217154	34217155	1

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr2	15314956	15314958	3
Insertion	Chr2	7698865	7698865	1
Insertion	Chr6	17675153	17675153	1
Insertion	Chr6	24743769	24743769	1
Insertion	Chr8	5378144	5378149	6

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	28794914	30957515	LOC_Os03g53990
Inversion	Chr3	28794927	30957524	LOC_Os03g53990

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	399375	Chr1	32812553	LOC_Os11g01740
Translocation	Chr11	399380	Chr1	32825925	LOC_Os11g01740
Translocation	Chr12	9761058	Chr1	3507037	LOC_Os01g07400
Translocation	Chr12	9800967	Chr1	3507049	LOC_Os01g07400
Translocation	Chr11	10905164	Chr5	25710995

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