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Mutant Information

Mutant Name	FN1379-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1379-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: 53

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 8113085 C-T Hetero INTERGENIC
SBS Chr1 17145159 C-A Hetero INTERGENIC
SBS Chr1 23640355 G-T Hetero INTRON
SBS Chr1 24254299 C-T Hetero INTERGENIC
SBS Chr2 19837308 A-G Hetero INTRON
SBS Chr3 12565145 T-A Homo INTERGENIC
SBS Chr3 16733511 G-A Homo INTERGENIC
SBS Chr3 20231385 T-C Homo INTERGENIC
SBS Chr3 23029404 A-T Homo INTERGENIC
SBS Chr3 29108925 C-A Hetero INTERGENIC
SBS Chr3 33178004 G-A Hetero INTERGENIC
SBS Chr3 34139439 A-T Hetero INTERGENIC
SBS Chr3 37532167 A-G Hetero INTERGENIC
SBS Chr4 6167651 A-T Hetero INTERGENIC
SBS Chr4 6167652 C-T Hetero INTERGENIC
SBS Chr4 9270238 C-T Homo INTERGENIC
SBS Chr4 19359464 C-T Hetero SPLICE_SITE_REGION
SBS Chr4 23207401 T-A Hetero INTERGENIC
SBS Chr4 29778748 C-T Hetero UTR_3_PRIME
SBS Chr4 31009281 G-A Hetero INTERGENIC
SBS Chr4 34616291 T-C Hetero INTERGENIC
SBS Chr5 7745595 C-T Homo INTERGENIC
SBS Chr5 11861390 C-G Hetero INTERGENIC
SBS Chr5 19930702 C-T Hetero INTERGENIC
SBS Chr6 12446249 G-A Hetero INTERGENIC
SBS Chr6 12533511 A-G Hetero UTR_3_PRIME
SBS Chr6 16771197 T-C Hetero INTRON
SBS Chr6 25054967 G-A Hetero INTERGENIC
SBS Chr7 4836595 A-T Hetero INTERGENIC
SBS Chr7 5912591 A-G Homo INTERGENIC
SBS Chr7 14414826 C-T Hetero INTERGENIC
SBS Chr7 16916497 C-G Hetero INTERGENIC
SBS Chr7 17068694 T-C Hetero INTERGENIC
SBS Chr7 27048982 T-C Homo INTRON
SBS Chr8 5688249 C-T Homo INTERGENIC
SBS Chr8 10997806 C-T Homo INTERGENIC
SBS Chr8 10997807 C-T Homo INTERGENIC
SBS Chr8 11323906 C-A Hetero INTRON
SBS Chr8 11417433 G-A Hetero INTERGENIC
SBS Chr8 11832744 A-C Homo INTERGENIC
SBS Chr8 26052794 G-T Hetero INTRON
SBS Chr8 26052805 G-T Hetero INTRON
SBS Chr9 1214016 C-T Homo UTR_5_PRIME
SBS Chr9 4958341 G-A Homo INTERGENIC
SBS Chr10 14246466 A-G Hetero INTERGENIC
SBS Chr10 18968380 A-G Hetero INTERGENIC
SBS Chr11 13260873 T-C Hetero INTERGENIC
SBS Chr12 522245 A-C Hetero INTERGENIC
SBS Chr12 5213772 T-A Hetero INTERGENIC
SBS Chr12 7112708 C-T Homo INTERGENIC
SBS Chr12 10445085 A-C Hetero UTR_3_PRIME
SBS Chr12 13248006 C-T Hetero INTERGENIC
SBS Chr12 15072404 T-C Hetero INTERGENIC

Deletions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr3 124188 124190 2
Deletion Chr4 791709 791720 11
Deletion Chr9 20239740 20239742 2
Deletion Chr9 20308455 20308462 7
Deletion Chr8 21511397 21511404 7
Deletion Chr7 27811744 27811750 6 OsKitaake07g259900

Insertions: 1

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr6 15572 15574 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr11 20408530 20467615 2
Inversion Chr11 20409843 20467622 2
Inversion Chr8 21017731 21335719 OsKitaake08g158000
Inversion Chr8 21017741 21570262 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	8113085	C-T	Hetero	INTERGENIC
SBS	Chr1	17145159	C-A	Hetero	INTERGENIC
SBS	Chr1	23640355	G-T	Hetero	INTRON
SBS	Chr1	24254299	C-T	Hetero	INTERGENIC
SBS	Chr2	19837308	A-G	Hetero	INTRON
SBS	Chr3	12565145	T-A	Homo	INTERGENIC
SBS	Chr3	16733511	G-A	Homo	INTERGENIC
SBS	Chr3	20231385	T-C	Homo	INTERGENIC
SBS	Chr3	23029404	A-T	Homo	INTERGENIC
SBS	Chr3	29108925	C-A	Hetero	INTERGENIC
SBS	Chr3	33178004	G-A	Hetero	INTERGENIC
SBS	Chr3	34139439	A-T	Hetero	INTERGENIC
SBS	Chr3	37532167	A-G	Hetero	INTERGENIC
SBS	Chr4	6167651	A-T	Hetero	INTERGENIC
SBS	Chr4	6167652	C-T	Hetero	INTERGENIC
SBS	Chr4	9270238	C-T	Homo	INTERGENIC
SBS	Chr4	19359464	C-T	Hetero	SPLICE_SITE_REGION
SBS	Chr4	23207401	T-A	Hetero	INTERGENIC
SBS	Chr4	29778748	C-T	Hetero	UTR_3_PRIME
SBS	Chr4	31009281	G-A	Hetero	INTERGENIC
SBS	Chr4	34616291	T-C	Hetero	INTERGENIC
SBS	Chr5	7745595	C-T	Homo	INTERGENIC
SBS	Chr5	11861390	C-G	Hetero	INTERGENIC
SBS	Chr5	19930702	C-T	Hetero	INTERGENIC
SBS	Chr6	12446249	G-A	Hetero	INTERGENIC
SBS	Chr6	12533511	A-G	Hetero	UTR_3_PRIME
SBS	Chr6	16771197	T-C	Hetero	INTRON
SBS	Chr6	25054967	G-A	Hetero	INTERGENIC
SBS	Chr7	4836595	A-T	Hetero	INTERGENIC
SBS	Chr7	5912591	A-G	Homo	INTERGENIC
SBS	Chr7	14414826	C-T	Hetero	INTERGENIC
SBS	Chr7	16916497	C-G	Hetero	INTERGENIC
SBS	Chr7	17068694	T-C	Hetero	INTERGENIC
SBS	Chr7	27048982	T-C	Homo	INTRON
SBS	Chr8	5688249	C-T	Homo	INTERGENIC
SBS	Chr8	10997806	C-T	Homo	INTERGENIC
SBS	Chr8	10997807	C-T	Homo	INTERGENIC
SBS	Chr8	11323906	C-A	Hetero	INTRON
SBS	Chr8	11417433	G-A	Hetero	INTERGENIC
SBS	Chr8	11832744	A-C	Homo	INTERGENIC
SBS	Chr8	26052794	G-T	Hetero	INTRON
SBS	Chr8	26052805	G-T	Hetero	INTRON
SBS	Chr9	1214016	C-T	Homo	UTR_5_PRIME
SBS	Chr9	4958341	G-A	Homo	INTERGENIC
SBS	Chr10	14246466	A-G	Hetero	INTERGENIC
SBS	Chr10	18968380	A-G	Hetero	INTERGENIC
SBS	Chr11	13260873	T-C	Hetero	INTERGENIC
SBS	Chr12	522245	A-C	Hetero	INTERGENIC
SBS	Chr12	5213772	T-A	Hetero	INTERGENIC
SBS	Chr12	7112708	C-T	Homo	INTERGENIC
SBS	Chr12	10445085	A-C	Hetero	UTR_3_PRIME
SBS	Chr12	13248006	C-T	Hetero	INTERGENIC
SBS	Chr12	15072404	T-C	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr3	124188	124190	2
Deletion	Chr4	791709	791720	11
Deletion	Chr9	20239740	20239742	2
Deletion	Chr9	20308455	20308462	7
Deletion	Chr8	21511397	21511404	7
Deletion	Chr7	27811744	27811750	6	OsKitaake07g259900

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	20408530	20467615	2
Inversion	Chr11	20409843	20467622	2
Inversion	Chr8	21017731	21335719	OsKitaake08g158000
Inversion	Chr8	21017741	21570262	2

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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

Position 2

Number of Genes