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Mutant Information

Mutant Name	FN1307-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1307-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 38

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 15744009 G-A Hetero UTR_5_PRIME
SBS Chr2 13082124 A-G Hetero INTERGENIC
SBS Chr2 36727906 G-T Hetero INTRON
SBS Chr3 5562197 G-A Hetero INTERGENIC
SBS Chr3 14262886 A-T Hetero INTERGENIC
SBS Chr3 18358102 G-T Homo INTERGENIC
SBS Chr3 18753138 T-C Homo INTERGENIC
SBS Chr3 19323118 T-C Homo INTERGENIC
SBS Chr3 26842389 C-A Hetero INTERGENIC
SBS Chr3 27583754 C-T Homo INTERGENIC
SBS Chr4 25678627 C-T Hetero INTERGENIC
SBS Chr4 25798336 C-T Hetero SPLICE_SITE_DONOR OsKitaake04g179900
SBS Chr5 10091 T-A Hetero INTERGENIC
SBS Chr5 10748476 T-G Homo INTERGENIC
SBS Chr5 16457648 A-G Homo INTERGENIC
SBS Chr5 18544347 C-A Hetero SPLICE_SITE_ACCEPTOR OsKitaake05g144900
SBS Chr5 18544348 T-C Hetero SPLICE_SITE_ACCEPTOR OsKitaake05g144900
SBS Chr5 20200304 A-G Hetero INTERGENIC
SBS Chr6 17609837 C-T Hetero INTRON
SBS Chr7 3654771 G-A Hetero INTERGENIC
SBS Chr7 14015952 C-T Homo INTERGENIC
SBS Chr9 2193405 T-C Homo INTERGENIC
SBS Chr9 10081922 G-A Hetero INTERGENIC
SBS Chr9 17422208 A-C Hetero INTERGENIC
SBS Chr9 20129986 G-A Hetero UTR_3_PRIME
SBS Chr9 22414435 T-A Hetero UTR_5_PRIME
SBS Chr10 10869831 C-T Homo INTERGENIC
SBS Chr10 13569116 C-A Homo INTERGENIC
SBS Chr11 19068477 C-A Hetero INTERGENIC
SBS Chr11 24183663 C-A Hetero INTERGENIC
SBS Chr11 24849907 G-C Hetero NON_SYNONYMOUS_CODING OsKitaake11g202100
SBS Chr12 988730 A-T Homo NON_SYNONYMOUS_CODING OsKitaake12g014500
SBS Chr12 6263294 G-T Hetero INTERGENIC
SBS Chr12 9617527 G-A Hetero INTERGENIC
SBS Chr12 13083623 T-A Hetero INTERGENIC
SBS Chr12 15050735 T-G Hetero INTERGENIC
SBS Chr12 16119271 C-T Hetero INTERGENIC
SBS Chr12 26738358 A-G Hetero INTERGENIC

Deletions: 14

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 88990 88991 1
Deletion Chr3 3143398 3143577 179
Deletion Chr6 3985245 3985255 10 OsKitaake06g055700
Deletion Chr4 10248875 10248876 1
Deletion Chr4 11721632 11721634 2
Deletion Chr1 11771961 11771963 2
Deletion Chr8 12807026 12807027 1
Deletion Chr7 12991964 12992031 67
Deletion Chr1 17186689 17186844 155
Deletion Chr4 19326355 19326364 9
Deletion Chr8 19368470 19368472 2
Deletion Chr12 25899502 25899504 2
Deletion Chr1 27960414 27960514 100
Deletion Chr2 35390344 35390354 10 OsKitaake02g371100

Insertions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr7 7941821 7941824 2
Insertion Chr9 12635637 12635640 2
Insertion Chr2 10324700 10324702 1
Insertion Chr2 33435361 33435366 4
Insertion Chr5 30228119 30228121 1
Insertion Chr5 30230376 30230384 7
Insertion Chr6 89620 89623 2

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr11 8779012 9115205

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr8 15299896 Chr1 1514340

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15744009	G-A	Hetero	UTR_5_PRIME
SBS	Chr2	13082124	A-G	Hetero	INTERGENIC
SBS	Chr2	36727906	G-T	Hetero	INTRON
SBS	Chr3	5562197	G-A	Hetero	INTERGENIC
SBS	Chr3	14262886	A-T	Hetero	INTERGENIC
SBS	Chr3	18358102	G-T	Homo	INTERGENIC
SBS	Chr3	18753138	T-C	Homo	INTERGENIC
SBS	Chr3	19323118	T-C	Homo	INTERGENIC
SBS	Chr3	26842389	C-A	Hetero	INTERGENIC
SBS	Chr3	27583754	C-T	Homo	INTERGENIC
SBS	Chr4	25678627	C-T	Hetero	INTERGENIC
SBS	Chr4	25798336	C-T	Hetero	SPLICE_SITE_DONOR	OsKitaake04g179900
SBS	Chr5	10091	T-A	Hetero	INTERGENIC
SBS	Chr5	10748476	T-G	Homo	INTERGENIC
SBS	Chr5	16457648	A-G	Homo	INTERGENIC
SBS	Chr5	18544347	C-A	Hetero	SPLICE_SITE_ACCEPTOR	OsKitaake05g144900
SBS	Chr5	18544348	T-C	Hetero	SPLICE_SITE_ACCEPTOR	OsKitaake05g144900
SBS	Chr5	20200304	A-G	Hetero	INTERGENIC
SBS	Chr6	17609837	C-T	Hetero	INTRON
SBS	Chr7	3654771	G-A	Hetero	INTERGENIC
SBS	Chr7	14015952	C-T	Homo	INTERGENIC
SBS	Chr9	2193405	T-C	Homo	INTERGENIC
SBS	Chr9	10081922	G-A	Hetero	INTERGENIC
SBS	Chr9	17422208	A-C	Hetero	INTERGENIC
SBS	Chr9	20129986	G-A	Hetero	UTR_3_PRIME
SBS	Chr9	22414435	T-A	Hetero	UTR_5_PRIME
SBS	Chr10	10869831	C-T	Homo	INTERGENIC
SBS	Chr10	13569116	C-A	Homo	INTERGENIC
SBS	Chr11	19068477	C-A	Hetero	INTERGENIC
SBS	Chr11	24183663	C-A	Hetero	INTERGENIC
SBS	Chr11	24849907	G-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g202100
SBS	Chr12	988730	A-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake12g014500
SBS	Chr12	6263294	G-T	Hetero	INTERGENIC
SBS	Chr12	9617527	G-A	Hetero	INTERGENIC
SBS	Chr12	13083623	T-A	Hetero	INTERGENIC
SBS	Chr12	15050735	T-G	Hetero	INTERGENIC
SBS	Chr12	16119271	C-T	Hetero	INTERGENIC
SBS	Chr12	26738358	A-G	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	88990	88991	1
Deletion	Chr3	3143398	3143577	179
Deletion	Chr6	3985245	3985255	10	OsKitaake06g055700
Deletion	Chr4	10248875	10248876	1
Deletion	Chr4	11721632	11721634	2
Deletion	Chr1	11771961	11771963	2
Deletion	Chr8	12807026	12807027	1
Deletion	Chr7	12991964	12992031	67
Deletion	Chr1	17186689	17186844	155
Deletion	Chr4	19326355	19326364	9
Deletion	Chr8	19368470	19368472	2
Deletion	Chr12	25899502	25899504	2
Deletion	Chr1	27960414	27960514	100
Deletion	Chr2	35390344	35390354	10	OsKitaake02g371100

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	8779012	9115205

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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

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes