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Mutant Information

Mutant Name	FN2196-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2196-S 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: 49

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 6467664 T-A Homo INTERGENIC
SBS Chr1 25829751 G-A Hetero INTERGENIC
SBS Chr1 30381930 C-T Hetero INTERGENIC
SBS Chr1 33046757 C-T Homo NON_SYNONYMOUS_CODING OsKitaake01g336900
SBS Chr1 33046758 C-T Homo NON_SYNONYMOUS_CODING OsKitaake01g336900
SBS Chr2 1210440 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake02g018300
SBS Chr2 5152578 A-T Hetero START_GAINED
SBS Chr2 8871967 C-T Hetero INTERGENIC
SBS Chr2 15332309 G-A Hetero INTERGENIC
SBS Chr2 19832802 C-T Hetero INTRON
SBS Chr2 37040860 T-A Hetero INTRON
SBS Chr3 4193870 G-A Hetero INTERGENIC
SBS Chr3 17705827 A-T Hetero INTERGENIC
SBS Chr3 22596291 A-C Hetero INTERGENIC
SBS Chr3 29191566 A-T Hetero INTERGENIC
SBS Chr3 32163210 C-T Hetero INTRON
SBS Chr4 4338511 C-T Homo INTERGENIC
SBS Chr4 7027754 C-T Hetero INTERGENIC
SBS Chr4 7911126 C-T Hetero INTERGENIC
SBS Chr4 19121291 G-C Hetero INTERGENIC
SBS Chr4 27930984 C-T Homo INTERGENIC
SBS Chr4 29239452 G-T Homo NON_SYNONYMOUS_CODING OsKitaake04g221700
SBS Chr4 29239453 C-T Homo SYNONYMOUS_CODING
SBS Chr4 31749343 T-C Hetero INTERGENIC
SBS Chr4 35578719 C-A Homo INTERGENIC
SBS Chr5 17532554 G-C Homo INTERGENIC
SBS Chr5 20655004 A-T Hetero INTERGENIC
SBS Chr5 29600273 A-G Homo INTRON
SBS Chr6 8629546 T-A Homo INTERGENIC
SBS Chr6 8790099 G-A Homo INTERGENIC
SBS Chr6 27267796 T-C Homo NON_SYNONYMOUS_CODING OsKitaake06g245500
SBS Chr7 9695490 C-T Homo INTERGENIC
SBS Chr7 18291694 A-G Homo INTERGENIC
SBS Chr7 23463667 C-T Hetero INTERGENIC
SBS Chr7 24979725 C-T Hetero START_GAINED
SBS Chr8 8624221 G-A Hetero INTRON
SBS Chr9 18820858 T-A Hetero INTERGENIC
SBS Chr10 4220946 T-A Homo INTRON
SBS Chr10 4220947 G-A Homo INTRON
SBS Chr10 6394858 T-A Hetero INTERGENIC
SBS Chr10 6940179 C-A Hetero INTERGENIC
SBS Chr10 9767083 G-A Hetero INTERGENIC
SBS Chr10 10992411 T-A Hetero INTRON
SBS Chr10 12190260 A-T Hetero INTERGENIC
SBS Chr10 17691091 G-A Homo INTERGENIC
SBS Chr11 17972424 C-T Hetero INTERGENIC
SBS Chr11 18008838 T-C Hetero INTRON
SBS Chr11 22027947 C-A Hetero INTERGENIC
SBS Chr11 22027948 C-T Hetero INTERGENIC

Deletions: 25

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 480001 685000 204999 10
Deletion Chr3 752270 752277 7
Deletion Chr5 7000623 7000627 4
Deletion Chr1 7190587 7190589 2
Deletion Chr5 7318909 7318910 1
Deletion Chr5 8967193 8967194 1
Deletion Chr9 11416001 11599000 182999 27
Deletion Chr9 11605001 11832000 226999 16
Deletion Chr6 11879884 11879890 6 OsKitaake06g129000
Deletion Chr9 12202815 12202819 4 OsKitaake09g079300
Deletion Chr6 12487998 12487999 1
Deletion Chr6 13516732 13516736 4
Deletion Chr3 14310024 14310026 2
Deletion Chr3 15192709 15192723 14
Deletion Chr6 15452001 15477000 24999 OsKitaake06g152400
Deletion Chr1 17362214 17362218 4
Deletion Chr7 19288852 19288854 2
Deletion Chr3 23263413 23263414 1
Deletion Chr10 23868375 23868376 1
Deletion Chr4 26850632 26850640 8
Deletion Chr3 27689455 27689458 3
Deletion Chr7 28961634 28961638 4
Deletion Chr1 30178456 30178462 6 OsKitaake01g297200
Deletion Chr2 30867286 30867298 12
Deletion Chr1 39650000 39650002 2

Insertions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 30729204 30729212 7
Insertion Chr3 28944102 28944105 2
Insertion Chr4 3220553 3220557 3
Insertion Chr5 23978164 23978169 4
Insertion Chr6 25025516 25025519 2
Insertion Chr7 25893745 25893748 2
Insertion Chr10 5135594 5135597 2

Inversions: 6

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr6 15117408 15372951
Inversion Chr6 15118694 15476773
Inversion Chr5 21241935 21285861 2
Inversion Chr5 21241943 21285861 2
Inversion Chr5 24459378 24532386
Inversion Chr5 24459427 24532391

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 681872 Chr3 29541051
Translocation Chr10 682557 Chr9 11787044
Translocation Chr9 11785774 Chr4 34997053
Translocation Chr9 11787040 Chr4 34996440 OsKitaake04g293400
Translocation Chr9 11788073 Chr3 29181671
Translocation Chr8 15647791 Chr4 8173697

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	6467664	T-A	Homo	INTERGENIC
SBS	Chr1	25829751	G-A	Hetero	INTERGENIC
SBS	Chr1	30381930	C-T	Hetero	INTERGENIC
SBS	Chr1	33046757	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g336900
SBS	Chr1	33046758	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g336900
SBS	Chr2	1210440	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake02g018300
SBS	Chr2	5152578	A-T	Hetero	START_GAINED
SBS	Chr2	8871967	C-T	Hetero	INTERGENIC
SBS	Chr2	15332309	G-A	Hetero	INTERGENIC
SBS	Chr2	19832802	C-T	Hetero	INTRON
SBS	Chr2	37040860	T-A	Hetero	INTRON
SBS	Chr3	4193870	G-A	Hetero	INTERGENIC
SBS	Chr3	17705827	A-T	Hetero	INTERGENIC
SBS	Chr3	22596291	A-C	Hetero	INTERGENIC
SBS	Chr3	29191566	A-T	Hetero	INTERGENIC
SBS	Chr3	32163210	C-T	Hetero	INTRON
SBS	Chr4	4338511	C-T	Homo	INTERGENIC
SBS	Chr4	7027754	C-T	Hetero	INTERGENIC
SBS	Chr4	7911126	C-T	Hetero	INTERGENIC
SBS	Chr4	19121291	G-C	Hetero	INTERGENIC
SBS	Chr4	27930984	C-T	Homo	INTERGENIC
SBS	Chr4	29239452	G-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake04g221700
SBS	Chr4	29239453	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr4	31749343	T-C	Hetero	INTERGENIC
SBS	Chr4	35578719	C-A	Homo	INTERGENIC
SBS	Chr5	17532554	G-C	Homo	INTERGENIC
SBS	Chr5	20655004	A-T	Hetero	INTERGENIC
SBS	Chr5	29600273	A-G	Homo	INTRON
SBS	Chr6	8629546	T-A	Homo	INTERGENIC
SBS	Chr6	8790099	G-A	Homo	INTERGENIC
SBS	Chr6	27267796	T-C	Homo	NON_SYNONYMOUS_CODING	OsKitaake06g245500
SBS	Chr7	9695490	C-T	Homo	INTERGENIC
SBS	Chr7	18291694	A-G	Homo	INTERGENIC
SBS	Chr7	23463667	C-T	Hetero	INTERGENIC
SBS	Chr7	24979725	C-T	Hetero	START_GAINED
SBS	Chr8	8624221	G-A	Hetero	INTRON
SBS	Chr9	18820858	T-A	Hetero	INTERGENIC
SBS	Chr10	4220946	T-A	Homo	INTRON
SBS	Chr10	4220947	G-A	Homo	INTRON
SBS	Chr10	6394858	T-A	Hetero	INTERGENIC
SBS	Chr10	6940179	C-A	Hetero	INTERGENIC
SBS	Chr10	9767083	G-A	Hetero	INTERGENIC
SBS	Chr10	10992411	T-A	Hetero	INTRON
SBS	Chr10	12190260	A-T	Hetero	INTERGENIC
SBS	Chr10	17691091	G-A	Homo	INTERGENIC
SBS	Chr11	17972424	C-T	Hetero	INTERGENIC
SBS	Chr11	18008838	T-C	Hetero	INTRON
SBS	Chr11	22027947	C-A	Hetero	INTERGENIC
SBS	Chr11	22027948	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	480001	685000	204999	10
Deletion	Chr3	752270	752277	7
Deletion	Chr5	7000623	7000627	4
Deletion	Chr1	7190587	7190589	2
Deletion	Chr5	7318909	7318910	1
Deletion	Chr5	8967193	8967194	1
Deletion	Chr9	11416001	11599000	182999	27
Deletion	Chr9	11605001	11832000	226999	16
Deletion	Chr6	11879884	11879890	6	OsKitaake06g129000
Deletion	Chr9	12202815	12202819	4	OsKitaake09g079300
Deletion	Chr6	12487998	12487999	1
Deletion	Chr6	13516732	13516736	4
Deletion	Chr3	14310024	14310026	2
Deletion	Chr3	15192709	15192723	14
Deletion	Chr6	15452001	15477000	24999	OsKitaake06g152400
Deletion	Chr1	17362214	17362218	4
Deletion	Chr7	19288852	19288854	2
Deletion	Chr3	23263413	23263414	1
Deletion	Chr10	23868375	23868376	1
Deletion	Chr4	26850632	26850640	8
Deletion	Chr3	27689455	27689458	3
Deletion	Chr7	28961634	28961638	4
Deletion	Chr1	30178456	30178462	6	OsKitaake01g297200
Deletion	Chr2	30867286	30867298	12
Deletion	Chr1	39650000	39650002	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	15117408	15372951
Inversion	Chr6	15118694	15476773
Inversion	Chr5	21241935	21285861	2
Inversion	Chr5	21241943	21285861	2
Inversion	Chr5	24459378	24532386
Inversion	Chr5	24459427	24532391

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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