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Mutant Information

Mutant Name	W706-3-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W706-3-1 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: 41

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 3158786 G-A Hetero INTERGENIC
SBS Chr1 3966993 C-A Homo UTR_3_PRIME
SBS Chr1 16809452 C-A Hetero INTRON
SBS Chr1 20218114 C-T Hetero INTRON
SBS Chr1 22322871 C-T Hetero INTERGENIC
SBS Chr1 31510269 G-T Hetero INTERGENIC
SBS Chr2 3296190 C-T Homo INTRON
SBS Chr2 3960195 G-A Homo INTERGENIC
SBS Chr2 15965656 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake02g165400
SBS Chr2 24148466 A-T Homo INTRON
SBS Chr3 5038863 G-C Homo INTERGENIC
SBS Chr4 1574352 C-T Homo INTERGENIC
SBS Chr4 35255706 A-G Homo INTERGENIC
SBS Chr5 9029861 C-T Hetero INTERGENIC
SBS Chr5 16576191 G-A Hetero INTERGENIC
SBS Chr5 21379537 T-A Homo INTERGENIC
SBS Chr6 11357715 T-A Homo INTERGENIC
SBS Chr6 15131281 G-C Hetero INTERGENIC
SBS Chr7 1864499 G-T Homo INTERGENIC
SBS Chr7 8316640 C-T Homo INTERGENIC
SBS Chr7 23829604 T-C Hetero INTERGENIC
SBS Chr7 23972006 T-G Hetero UTR_5_PRIME
SBS Chr7 25002096 C-A Hetero INTERGENIC
SBS Chr8 6046116 C-T Hetero INTERGENIC
SBS Chr8 9023869 C-T Homo INTERGENIC
SBS Chr8 20099208 G-T Hetero INTERGENIC
SBS Chr9 3206650 A-C Hetero INTERGENIC
SBS Chr9 5781611 C-T Hetero INTRON
SBS Chr10 9809339 C-T Hetero INTRON
SBS Chr10 16162500 C-G Homo NON_SYNONYMOUS_CODING OsKitaake10g108300
SBS Chr11 6122379 C-G Homo INTERGENIC
SBS Chr11 14452956 G-C Homo INTERGENIC
SBS Chr11 18430202 A-C Hetero INTERGENIC
SBS Chr12 11718594 G-A Hetero INTERGENIC
SBS Chr12 13480797 C-T Homo INTERGENIC
SBS Chr12 16364358 C-G Hetero INTERGENIC
SBS Chr12 23524107 A-G Homo INTERGENIC
SBS Chr12 24167514 T-A Homo INTERGENIC
SBS Chr12 24167515 C-A Homo INTERGENIC
SBS Chr12 24167519 G-T Homo INTERGENIC
SBS Chr12 26407043 A-C Homo INTERGENIC

Deletions: 22

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 911861 911863 2
Deletion Chr11 2330011 2330023 12
Deletion Chr3 2907316 2907317 1
Deletion Chr6 7549896 7549947 51
Deletion Chr3 8152249 8152340 91
Deletion Chr12 8903748 8903749 1
Deletion Chr8 10070782 10070783 1
Deletion Chr3 10505746 10505747 1
Deletion Chr9 13544822 13544829 7
Deletion Chr8 13950423 13950437 14
Deletion Chr12 17409815 17409816 1
Deletion Chr8 18729813 18729823 10
Deletion Chr4 19408014 19408016 2
Deletion Chr8 24535069 24535072 3
Deletion Chr1 24602667 24602669 2 OsKitaake01g237700
Deletion Chr11 24857658 24857666 8
Deletion Chr11 26431359 26431364 5 OsKitaake11g214900
Deletion Chr5 28779787 28779789 2
Deletion Chr1 30069215 30069219 4
Deletion Chr3 31710882 31710885 3
Deletion Chr2 35358695 35358705 10
Deletion Chr1 37466102 37466104 2

Insertions: 1

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr12 4052293 4052296 2

Translocations: 5

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 2911760 Chr3 25500219 OsKitaake03g269300
Translocation Chr11 2912566 Chr3 25500228 OsKitaake03g269300
Translocation Chr10 8627604 Chr6 14760394
Translocation Chr8 29049014 Chr2 18784765 2
Translocation Chr8 29049045 Chr2 18783693 OsKitaake08g251900

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3158786	G-A	Hetero	INTERGENIC
SBS	Chr1	3966993	C-A	Homo	UTR_3_PRIME
SBS	Chr1	16809452	C-A	Hetero	INTRON
SBS	Chr1	20218114	C-T	Hetero	INTRON
SBS	Chr1	22322871	C-T	Hetero	INTERGENIC
SBS	Chr1	31510269	G-T	Hetero	INTERGENIC
SBS	Chr2	3296190	C-T	Homo	INTRON
SBS	Chr2	3960195	G-A	Homo	INTERGENIC
SBS	Chr2	15965656	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake02g165400
SBS	Chr2	24148466	A-T	Homo	INTRON
SBS	Chr3	5038863	G-C	Homo	INTERGENIC
SBS	Chr4	1574352	C-T	Homo	INTERGENIC
SBS	Chr4	35255706	A-G	Homo	INTERGENIC
SBS	Chr5	9029861	C-T	Hetero	INTERGENIC
SBS	Chr5	16576191	G-A	Hetero	INTERGENIC
SBS	Chr5	21379537	T-A	Homo	INTERGENIC
SBS	Chr6	11357715	T-A	Homo	INTERGENIC
SBS	Chr6	15131281	G-C	Hetero	INTERGENIC
SBS	Chr7	1864499	G-T	Homo	INTERGENIC
SBS	Chr7	8316640	C-T	Homo	INTERGENIC
SBS	Chr7	23829604	T-C	Hetero	INTERGENIC
SBS	Chr7	23972006	T-G	Hetero	UTR_5_PRIME
SBS	Chr7	25002096	C-A	Hetero	INTERGENIC
SBS	Chr8	6046116	C-T	Hetero	INTERGENIC
SBS	Chr8	9023869	C-T	Homo	INTERGENIC
SBS	Chr8	20099208	G-T	Hetero	INTERGENIC
SBS	Chr9	3206650	A-C	Hetero	INTERGENIC
SBS	Chr9	5781611	C-T	Hetero	INTRON
SBS	Chr10	9809339	C-T	Hetero	INTRON
SBS	Chr10	16162500	C-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake10g108300
SBS	Chr11	6122379	C-G	Homo	INTERGENIC
SBS	Chr11	14452956	G-C	Homo	INTERGENIC
SBS	Chr11	18430202	A-C	Hetero	INTERGENIC
SBS	Chr12	11718594	G-A	Hetero	INTERGENIC
SBS	Chr12	13480797	C-T	Homo	INTERGENIC
SBS	Chr12	16364358	C-G	Hetero	INTERGENIC
SBS	Chr12	23524107	A-G	Homo	INTERGENIC
SBS	Chr12	24167514	T-A	Homo	INTERGENIC
SBS	Chr12	24167515	C-A	Homo	INTERGENIC
SBS	Chr12	24167519	G-T	Homo	INTERGENIC
SBS	Chr12	26407043	A-C	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	911861	911863	2
Deletion	Chr11	2330011	2330023	12
Deletion	Chr3	2907316	2907317	1
Deletion	Chr6	7549896	7549947	51
Deletion	Chr3	8152249	8152340	91
Deletion	Chr12	8903748	8903749	1
Deletion	Chr8	10070782	10070783	1
Deletion	Chr3	10505746	10505747	1
Deletion	Chr9	13544822	13544829	7
Deletion	Chr8	13950423	13950437	14
Deletion	Chr12	17409815	17409816	1
Deletion	Chr8	18729813	18729823	10
Deletion	Chr4	19408014	19408016	2
Deletion	Chr8	24535069	24535072	3
Deletion	Chr1	24602667	24602669	2	OsKitaake01g237700
Deletion	Chr11	24857658	24857666	8
Deletion	Chr11	26431359	26431364	5	OsKitaake11g214900
Deletion	Chr5	28779787	28779789	2
Deletion	Chr1	30069215	30069219	4
Deletion	Chr3	31710882	31710885	3
Deletion	Chr2	35358695	35358705	10
Deletion	Chr1	37466102	37466104	2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	2911760	Chr3	25500219	OsKitaake03g269300
Translocation	Chr11	2912566	Chr3	25500228	OsKitaake03g269300
Translocation	Chr10	8627604	Chr6	14760394
Translocation	Chr8	29049014	Chr2	18784765	2
Translocation	Chr8	29049045	Chr2	18783693	OsKitaake08g251900

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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