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Mutant Information

Mutant Name	FN1438-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1438-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 37

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 10994663 T-A Homo INTRON
SBS Chr1 28708422 G-A Hetero INTERGENIC
SBS Chr1 40903096 C-T Hetero INTRON
SBS Chr2 7875286 C-T Hetero INTERGENIC
SBS Chr3 1888939 T-C Hetero UTR_3_PRIME
SBS Chr3 28798979 G-A Hetero SYNONYMOUS_CODING
SBS Chr4 2087663 C-A Hetero INTERGENIC
SBS Chr4 7952610 C-A Hetero INTERGENIC
SBS Chr4 10053874 A-G Hetero INTERGENIC
SBS Chr4 17731207 A-C Hetero INTERGENIC
SBS Chr4 29556868 T-G Homo INTERGENIC
SBS Chr4 29556892 G-A Homo INTERGENIC
SBS Chr5 20645164 T-A Hetero INTERGENIC
SBS Chr5 24618190 G-A Hetero INTERGENIC
SBS Chr5 25870579 C-T Homo INTERGENIC
SBS Chr6 25597832 A-T Hetero INTERGENIC
SBS Chr6 25597833 T-C Hetero INTERGENIC
SBS Chr6 29227565 G-A Hetero INTERGENIC
SBS Chr6 31003023 T-A Hetero INTRON
SBS Chr7 2538269 G-A Hetero INTERGENIC
SBS Chr7 2538270 C-A Hetero INTERGENIC
SBS Chr7 3004108 C-T Hetero INTERGENIC
SBS Chr7 4556788 C-T Hetero INTERGENIC
SBS Chr7 14233157 G-A Hetero INTERGENIC
SBS Chr7 15387578 T-A Homo INTERGENIC
SBS Chr8 3790238 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake08g043400
SBS Chr8 6661050 T-G Hetero INTERGENIC
SBS Chr8 23782776 G-C Hetero INTERGENIC
SBS Chr9 2976270 C-T Hetero INTERGENIC
SBS Chr9 14829579 C-A Homo INTERGENIC
SBS Chr9 17161056 T-A Homo SYNONYMOUS_CODING
SBS Chr9 17454425 A-G Hetero INTERGENIC
SBS Chr9 17796646 A-G Homo INTERGENIC
SBS Chr10 7475809 G-A Homo INTERGENIC
SBS Chr10 17920742 G-A Hetero INTERGENIC
SBS Chr10 21322192 C-T Hetero INTERGENIC
SBS Chr11 1301441 C-T Hetero INTERGENIC

Deletions: 22

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr2 1640001 1649000 8999 OsKitaake02g025800
Deletion Chr3 2517001 2537000 19999 2
Deletion Chr6 3742706 3742707 1
Deletion Chr6 4275001 4284000 8999 OsKitaake06g059100
Deletion Chr6 5299099 5299100 1
Deletion Chr3 12076714 12076715 1
Deletion Chr5 15447051 15447059 8
Deletion Chr2 16079001 16090000 10999 OsKitaake02g166300
Deletion Chr5 16788001 16802000 13999 OsKitaake05g128600
Deletion Chr1 19633001 19642000 8999 OsKitaake01g195600
Deletion Chr7 22915001 22922000 6999 OsKitaake07g197300
Deletion Chr2 23205845 23205941 96
Deletion Chr2 24413001 24431000 17999
Deletion Chr12 26001148 26001153 5 OsKitaake12g215000
Deletion Chr4 30493162 30493163 1 OsKitaake04g235300
Deletion Chr1 31482133 31482211 78 OsKitaake01g316000
Deletion Chr3 31740001 31748000 7999 OsKitaake03g334600
Deletion Chr4 33006285 33006286 1
Deletion Chr3 33406934 33406949 15
Deletion Chr2 34649791 34649805 14
Deletion Chr3 34834001 34844000 9999 OsKitaake03g380100
Deletion Chr3 37080355 37080359 4

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 204130 204133 2
Insertion Chr3 24393479 24393482 2
Insertion Chr7 24564030 24564033 2
Insertion Chr12 10320543 10320546 2
Insertion Chr4 2917658 2917660 1

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10994663	T-A	Homo	INTRON
SBS	Chr1	28708422	G-A	Hetero	INTERGENIC
SBS	Chr1	40903096	C-T	Hetero	INTRON
SBS	Chr2	7875286	C-T	Hetero	INTERGENIC
SBS	Chr3	1888939	T-C	Hetero	UTR_3_PRIME
SBS	Chr3	28798979	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr4	2087663	C-A	Hetero	INTERGENIC
SBS	Chr4	7952610	C-A	Hetero	INTERGENIC
SBS	Chr4	10053874	A-G	Hetero	INTERGENIC
SBS	Chr4	17731207	A-C	Hetero	INTERGENIC
SBS	Chr4	29556868	T-G	Homo	INTERGENIC
SBS	Chr4	29556892	G-A	Homo	INTERGENIC
SBS	Chr5	20645164	T-A	Hetero	INTERGENIC
SBS	Chr5	24618190	G-A	Hetero	INTERGENIC
SBS	Chr5	25870579	C-T	Homo	INTERGENIC
SBS	Chr6	25597832	A-T	Hetero	INTERGENIC
SBS	Chr6	25597833	T-C	Hetero	INTERGENIC
SBS	Chr6	29227565	G-A	Hetero	INTERGENIC
SBS	Chr6	31003023	T-A	Hetero	INTRON
SBS	Chr7	2538269	G-A	Hetero	INTERGENIC
SBS	Chr7	2538270	C-A	Hetero	INTERGENIC
SBS	Chr7	3004108	C-T	Hetero	INTERGENIC
SBS	Chr7	4556788	C-T	Hetero	INTERGENIC
SBS	Chr7	14233157	G-A	Hetero	INTERGENIC
SBS	Chr7	15387578	T-A	Homo	INTERGENIC
SBS	Chr8	3790238	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake08g043400
SBS	Chr8	6661050	T-G	Hetero	INTERGENIC
SBS	Chr8	23782776	G-C	Hetero	INTERGENIC
SBS	Chr9	2976270	C-T	Hetero	INTERGENIC
SBS	Chr9	14829579	C-A	Homo	INTERGENIC
SBS	Chr9	17161056	T-A	Homo	SYNONYMOUS_CODING
SBS	Chr9	17454425	A-G	Hetero	INTERGENIC
SBS	Chr9	17796646	A-G	Homo	INTERGENIC
SBS	Chr10	7475809	G-A	Homo	INTERGENIC
SBS	Chr10	17920742	G-A	Hetero	INTERGENIC
SBS	Chr10	21322192	C-T	Hetero	INTERGENIC
SBS	Chr11	1301441	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr2	1640001	1649000	8999	OsKitaake02g025800
Deletion	Chr3	2517001	2537000	19999	2
Deletion	Chr6	3742706	3742707	1
Deletion	Chr6	4275001	4284000	8999	OsKitaake06g059100
Deletion	Chr6	5299099	5299100	1
Deletion	Chr3	12076714	12076715	1
Deletion	Chr5	15447051	15447059	8
Deletion	Chr2	16079001	16090000	10999	OsKitaake02g166300
Deletion	Chr5	16788001	16802000	13999	OsKitaake05g128600
Deletion	Chr1	19633001	19642000	8999	OsKitaake01g195600
Deletion	Chr7	22915001	22922000	6999	OsKitaake07g197300
Deletion	Chr2	23205845	23205941	96
Deletion	Chr2	24413001	24431000	17999
Deletion	Chr12	26001148	26001153	5	OsKitaake12g215000
Deletion	Chr4	30493162	30493163	1	OsKitaake04g235300
Deletion	Chr1	31482133	31482211	78	OsKitaake01g316000
Deletion	Chr3	31740001	31748000	7999	OsKitaake03g334600
Deletion	Chr4	33006285	33006286	1
Deletion	Chr3	33406934	33406949	15
Deletion	Chr2	34649791	34649805	14
Deletion	Chr3	34834001	34844000	9999	OsKitaake03g380100
Deletion	Chr3	37080355	37080359	4

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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