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Mutant Information

Mutant Name	FN2188-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2188-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 40

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1121843 G-T Hetero INTERGENIC
SBS Chr1 7498682 T-A Homo INTRON
SBS Chr1 16004200 T-A Hetero INTERGENIC
SBS Chr1 17833861 A-T Hetero UTR_3_PRIME
SBS Chr1 21173444 C-T Hetero INTERGENIC
SBS Chr1 30146770 C-T Hetero INTERGENIC
SBS Chr2 20948446 A-G Hetero INTERGENIC
SBS Chr2 24801497 G-T Hetero INTERGENIC
SBS Chr3 4436522 T-A Homo INTERGENIC
SBS Chr3 12718089 A-C Hetero INTRON
SBS Chr3 14018452 C-T Hetero INTERGENIC
SBS Chr3 14347391 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake03g186800
SBS Chr3 22097737 A-T Hetero INTRON
SBS Chr3 22717056 A-G Homo INTERGENIC
SBS Chr3 27426771 C-T Homo SYNONYMOUS_CODING
SBS Chr3 30534445 T-C Hetero INTERGENIC
SBS Chr3 32797725 T-C Hetero INTRON
SBS Chr4 8417128 T-C Hetero INTERGENIC
SBS Chr4 21496489 C-T Hetero INTERGENIC
SBS Chr5 13583337 G-T Hetero INTERGENIC
SBS Chr5 20538403 C-A Homo UTR_3_PRIME
SBS Chr5 27070526 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake05g242900
SBS Chr5 27294886 C-A Hetero INTRON
SBS Chr5 29998957 C-T Hetero INTERGENIC
SBS Chr6 912427 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake06g010000
SBS Chr6 23948103 A-T Hetero INTRON
SBS Chr6 29476928 T-A Hetero NON_SYNONYMOUS_CODING OsKitaake06g273200
SBS Chr6 30939609 C-T Hetero INTERGENIC
SBS Chr8 330338 C-A Hetero INTERGENIC
SBS Chr8 10284846 G-A Hetero INTERGENIC
SBS Chr8 22627726 T-A Hetero INTRON
SBS Chr10 7839680 A-G Homo INTERGENIC
SBS Chr10 8101098 C-T Homo INTERGENIC
SBS Chr10 19936680 A-G Homo NON_SYNONYMOUS_CODING OsKitaake10g149900
SBS Chr11 10414083 G-C Hetero INTERGENIC
SBS Chr11 12359306 G-A Hetero INTERGENIC
SBS Chr12 14023449 A-G Homo INTERGENIC
SBS Chr12 22021010 C-T Hetero UTR_5_PRIME
SBS Chr12 24419763 C-T Homo INTERGENIC
SBS Chr12 25800784 T-C Homo INTRON

Deletions: 14

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr12 1219190 1219197 7 OsKitaake12g017500
Deletion Chr12 6440001 6544000 103999 15
Deletion Chr5 7167941 7167946 5
Deletion Chr5 7687229 7687231 2 OsKitaake05g076701
Deletion Chr12 9399001 9429000 29999 OsKitaake12g091600
Deletion Chr9 12635637 12635639 2
Deletion Chr1 15338001 15349000 10999 2
Deletion Chr4 17340295 17340308 13 OsKitaake04g085200
Deletion Chr1 20049762 20049773 11
Deletion Chr3 23658096 23658097 1
Deletion Chr3 25695612 25695618 6 OsKitaake03g271001
Deletion Chr3 26304788 26304794 6
Deletion Chr12 26838469 26838475 6
Deletion Chr5 29915745 29915747 2

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 21260695 21260698 2
Insertion Chr1 30747744 30747747 2
Insertion Chr7 22117520 22117523 2
Insertion Chr9 17711602 17711604 1
Insertion Chr8 1411838 1411840 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr11 22675222 22902765
Inversion Chr11 22675339 22902770

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 22675230 Chr3 21642911
Translocation Chr11 22675323 Chr3 21642909

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1121843	G-T	Hetero	INTERGENIC
SBS	Chr1	7498682	T-A	Homo	INTRON
SBS	Chr1	16004200	T-A	Hetero	INTERGENIC
SBS	Chr1	17833861	A-T	Hetero	UTR_3_PRIME
SBS	Chr1	21173444	C-T	Hetero	INTERGENIC
SBS	Chr1	30146770	C-T	Hetero	INTERGENIC
SBS	Chr2	20948446	A-G	Hetero	INTERGENIC
SBS	Chr2	24801497	G-T	Hetero	INTERGENIC
SBS	Chr3	4436522	T-A	Homo	INTERGENIC
SBS	Chr3	12718089	A-C	Hetero	INTRON
SBS	Chr3	14018452	C-T	Hetero	INTERGENIC
SBS	Chr3	14347391	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g186800
SBS	Chr3	22097737	A-T	Hetero	INTRON
SBS	Chr3	22717056	A-G	Homo	INTERGENIC
SBS	Chr3	27426771	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr3	30534445	T-C	Hetero	INTERGENIC
SBS	Chr3	32797725	T-C	Hetero	INTRON
SBS	Chr4	8417128	T-C	Hetero	INTERGENIC
SBS	Chr4	21496489	C-T	Hetero	INTERGENIC
SBS	Chr5	13583337	G-T	Hetero	INTERGENIC
SBS	Chr5	20538403	C-A	Homo	UTR_3_PRIME
SBS	Chr5	27070526	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g242900
SBS	Chr5	27294886	C-A	Hetero	INTRON
SBS	Chr5	29998957	C-T	Hetero	INTERGENIC
SBS	Chr6	912427	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g010000
SBS	Chr6	23948103	A-T	Hetero	INTRON
SBS	Chr6	29476928	T-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g273200
SBS	Chr6	30939609	C-T	Hetero	INTERGENIC
SBS	Chr8	330338	C-A	Hetero	INTERGENIC
SBS	Chr8	10284846	G-A	Hetero	INTERGENIC
SBS	Chr8	22627726	T-A	Hetero	INTRON
SBS	Chr10	7839680	A-G	Homo	INTERGENIC
SBS	Chr10	8101098	C-T	Homo	INTERGENIC
SBS	Chr10	19936680	A-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake10g149900
SBS	Chr11	10414083	G-C	Hetero	INTERGENIC
SBS	Chr11	12359306	G-A	Hetero	INTERGENIC
SBS	Chr12	14023449	A-G	Homo	INTERGENIC
SBS	Chr12	22021010	C-T	Hetero	UTR_5_PRIME
SBS	Chr12	24419763	C-T	Homo	INTERGENIC
SBS	Chr12	25800784	T-C	Homo	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr12	1219190	1219197	7	OsKitaake12g017500
Deletion	Chr12	6440001	6544000	103999	15
Deletion	Chr5	7167941	7167946	5
Deletion	Chr5	7687229	7687231	2	OsKitaake05g076701
Deletion	Chr12	9399001	9429000	29999	OsKitaake12g091600
Deletion	Chr9	12635637	12635639	2
Deletion	Chr1	15338001	15349000	10999	2
Deletion	Chr4	17340295	17340308	13	OsKitaake04g085200
Deletion	Chr1	20049762	20049773	11
Deletion	Chr3	23658096	23658097	1
Deletion	Chr3	25695612	25695618	6	OsKitaake03g271001
Deletion	Chr3	26304788	26304794	6
Deletion	Chr12	26838469	26838475	6
Deletion	Chr5	29915745	29915747	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	22675222	22902765
Inversion	Chr11	22675339	22902770

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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