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Mutant Information

Mutant Name	FN2204-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2204-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: 60

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 2081574 G-T Homo INTRON
SBS Chr2 12740088 G-A Hetero INTERGENIC
SBS Chr2 16839707 C-A Hetero INTERGENIC
SBS Chr2 33425154 C-T Homo INTERGENIC
SBS Chr3 2857265 T-G Hetero INTERGENIC
SBS Chr3 6269511 A-G Homo INTERGENIC
SBS Chr3 14379762 C-T Hetero INTRON
SBS Chr3 25180504 G-C Hetero NON_SYNONYMOUS_CODING OsKitaake03g266600
SBS Chr3 26378630 T-C Hetero INTRON
SBS Chr3 29213708 A-G Hetero SYNONYMOUS_CODING
SBS Chr3 30582664 T-A Hetero UTR_3_PRIME
SBS Chr3 30582665 A-T Hetero UTR_3_PRIME
SBS Chr3 30582671 T-G Hetero UTR_3_PRIME
SBS Chr4 1330460 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake04g010100
SBS Chr4 3658902 A-G Hetero INTRON
SBS Chr4 3845475 G-A Hetero INTERGENIC
SBS Chr4 4285651 G-A Hetero INTERGENIC
SBS Chr4 5203009 A-T Hetero INTERGENIC
SBS Chr4 15660098 T-C Hetero INTERGENIC
SBS Chr4 30289000 C-T Hetero INTERGENIC
SBS Chr4 30767806 T-G Hetero INTERGENIC
SBS Chr5 6492791 T-A Hetero INTERGENIC
SBS Chr5 6716349 C-T Hetero INTERGENIC
SBS Chr5 15398121 G-A Homo INTERGENIC
SBS Chr6 4552276 T-C Hetero INTERGENIC
SBS Chr6 10601497 A-G Homo UTR_5_PRIME
SBS Chr6 18644194 A-G Homo INTERGENIC
SBS Chr6 22013082 G-A Homo INTERGENIC
SBS Chr7 13438383 G-C Hetero INTERGENIC
SBS Chr7 16726232 G-A Hetero INTERGENIC
SBS Chr7 18743771 C-A Hetero INTERGENIC
SBS Chr7 20742576 G-A Hetero INTERGENIC
SBS Chr7 26579371 A-G Hetero START_GAINED
SBS Chr8 24987874 G-A Hetero INTERGENIC
SBS Chr9 10480387 C-T Hetero INTERGENIC
SBS Chr9 10892880 G-A Hetero INTERGENIC
SBS Chr9 12331171 G-A Hetero INTERGENIC
SBS Chr9 13881751 G-T Hetero INTERGENIC
SBS Chr9 16807062 C-A Hetero INTERGENIC
SBS Chr10 5504930 C-A Hetero INTERGENIC
SBS Chr10 6809195 T-A Hetero INTERGENIC
SBS Chr10 7355639 A-C Hetero INTRON
SBS Chr10 14229926 C-A Hetero INTERGENIC
SBS Chr10 20243872 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake10g154100
SBS Chr10 20765874 A-T Hetero INTERGENIC
SBS Chr10 20821564 G-T Hetero INTERGENIC
SBS Chr11 55461 C-T Hetero INTERGENIC
SBS Chr11 2448727 C-G Hetero INTERGENIC
SBS Chr11 3218442 T-A Hetero INTERGENIC
SBS Chr11 3961868 G-A Hetero INTERGENIC
SBS Chr11 9753885 C-A Hetero INTERGENIC
SBS Chr11 11688360 T-C Hetero INTRON
SBS Chr11 11717412 T-C Hetero INTERGENIC
SBS Chr11 14190150 T-A Hetero INTRON
SBS Chr11 16033072 A-T Hetero INTERGENIC
SBS Chr11 17040348 A-C Hetero INTRON
SBS Chr11 18574692 C-G Hetero INTERGENIC
SBS Chr11 18914076 C-T Hetero INTERGENIC
SBS Chr11 29215464 G-A Hetero INTERGENIC
SBS Chr12 5638996 T-C Homo INTERGENIC

Deletions: 21

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 2125361 2125365 4
Deletion Chr6 3075126 3075139 13
Deletion Chr1 4060105 4060107 2
Deletion Chr2 4564414 4564420 6
Deletion Chr2 5756662 5756667 5 OsKitaake02g079700
Deletion Chr5 6137977 6137980 3
Deletion Chr12 8275471 8275473 2
Deletion Chr3 8845150 8845160 10 OsKitaake03g121000
Deletion Chr2 13003344 13003361 17
Deletion Chr12 14415380 14415381 1
Deletion Chr7 15569240 15569248 8 OsKitaake07g129400
Deletion Chr11 16636849 16636856 7
Deletion Chr7 18237593 18237594 1
Deletion Chr10 20007743 20007745 2
Deletion Chr11 24033387 24033390 3
Deletion Chr8 24945001 24988000 42999 2
Deletion Chr11 25718852 25718855 3
Deletion Chr6 26673352 26673354 2
Deletion Chr8 28449854 28449855 1
Deletion Chr1 31329567 31329579 12
Deletion Chr3 36511001 36522000 10999 2

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 4913987 4913991 3
Insertion Chr6 2939074 2939077 2
Insertion Chr6 24846096 24846099 2
Insertion Chr8 11656313 11656316 2
Insertion Chr8 28456327 28456330 2
Insertion Chr10 2135458 2135461 2

Inversions: 6

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr12 10113382 10238975
Inversion Chr12 10113383 10238980
Inversion Chr8 24944837 24997955
Inversion Chr8 24987659 24998003
Inversion Chr3 29776474 30057030 OsKitaake03g311350
Inversion Chr3 30057082 30558163 OsKitaake03g320800

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr5 16863159 Chr4 1382914 OsKitaake05g128800
Translocation Chr5 16863182 Chr4 1382815 OsKitaake05g128800
Translocation Chr11 19637954 Chr2 551064 OsKitaake11g153200
Translocation Chr11 19638267 Chr2 551052 OsKitaake11g153200

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	2081574	G-T	Homo	INTRON
SBS	Chr2	12740088	G-A	Hetero	INTERGENIC
SBS	Chr2	16839707	C-A	Hetero	INTERGENIC
SBS	Chr2	33425154	C-T	Homo	INTERGENIC
SBS	Chr3	2857265	T-G	Hetero	INTERGENIC
SBS	Chr3	6269511	A-G	Homo	INTERGENIC
SBS	Chr3	14379762	C-T	Hetero	INTRON
SBS	Chr3	25180504	G-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g266600
SBS	Chr3	26378630	T-C	Hetero	INTRON
SBS	Chr3	29213708	A-G	Hetero	SYNONYMOUS_CODING
SBS	Chr3	30582664	T-A	Hetero	UTR_3_PRIME
SBS	Chr3	30582665	A-T	Hetero	UTR_3_PRIME
SBS	Chr3	30582671	T-G	Hetero	UTR_3_PRIME
SBS	Chr4	1330460	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g010100
SBS	Chr4	3658902	A-G	Hetero	INTRON
SBS	Chr4	3845475	G-A	Hetero	INTERGENIC
SBS	Chr4	4285651	G-A	Hetero	INTERGENIC
SBS	Chr4	5203009	A-T	Hetero	INTERGENIC
SBS	Chr4	15660098	T-C	Hetero	INTERGENIC
SBS	Chr4	30289000	C-T	Hetero	INTERGENIC
SBS	Chr4	30767806	T-G	Hetero	INTERGENIC
SBS	Chr5	6492791	T-A	Hetero	INTERGENIC
SBS	Chr5	6716349	C-T	Hetero	INTERGENIC
SBS	Chr5	15398121	G-A	Homo	INTERGENIC
SBS	Chr6	4552276	T-C	Hetero	INTERGENIC
SBS	Chr6	10601497	A-G	Homo	UTR_5_PRIME
SBS	Chr6	18644194	A-G	Homo	INTERGENIC
SBS	Chr6	22013082	G-A	Homo	INTERGENIC
SBS	Chr7	13438383	G-C	Hetero	INTERGENIC
SBS	Chr7	16726232	G-A	Hetero	INTERGENIC
SBS	Chr7	18743771	C-A	Hetero	INTERGENIC
SBS	Chr7	20742576	G-A	Hetero	INTERGENIC
SBS	Chr7	26579371	A-G	Hetero	START_GAINED
SBS	Chr8	24987874	G-A	Hetero	INTERGENIC
SBS	Chr9	10480387	C-T	Hetero	INTERGENIC
SBS	Chr9	10892880	G-A	Hetero	INTERGENIC
SBS	Chr9	12331171	G-A	Hetero	INTERGENIC
SBS	Chr9	13881751	G-T	Hetero	INTERGENIC
SBS	Chr9	16807062	C-A	Hetero	INTERGENIC
SBS	Chr10	5504930	C-A	Hetero	INTERGENIC
SBS	Chr10	6809195	T-A	Hetero	INTERGENIC
SBS	Chr10	7355639	A-C	Hetero	INTRON
SBS	Chr10	14229926	C-A	Hetero	INTERGENIC
SBS	Chr10	20243872	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake10g154100
SBS	Chr10	20765874	A-T	Hetero	INTERGENIC
SBS	Chr10	20821564	G-T	Hetero	INTERGENIC
SBS	Chr11	55461	C-T	Hetero	INTERGENIC
SBS	Chr11	2448727	C-G	Hetero	INTERGENIC
SBS	Chr11	3218442	T-A	Hetero	INTERGENIC
SBS	Chr11	3961868	G-A	Hetero	INTERGENIC
SBS	Chr11	9753885	C-A	Hetero	INTERGENIC
SBS	Chr11	11688360	T-C	Hetero	INTRON
SBS	Chr11	11717412	T-C	Hetero	INTERGENIC
SBS	Chr11	14190150	T-A	Hetero	INTRON
SBS	Chr11	16033072	A-T	Hetero	INTERGENIC
SBS	Chr11	17040348	A-C	Hetero	INTRON
SBS	Chr11	18574692	C-G	Hetero	INTERGENIC
SBS	Chr11	18914076	C-T	Hetero	INTERGENIC
SBS	Chr11	29215464	G-A	Hetero	INTERGENIC
SBS	Chr12	5638996	T-C	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	2125361	2125365	4
Deletion	Chr6	3075126	3075139	13
Deletion	Chr1	4060105	4060107	2
Deletion	Chr2	4564414	4564420	6
Deletion	Chr2	5756662	5756667	5	OsKitaake02g079700
Deletion	Chr5	6137977	6137980	3
Deletion	Chr12	8275471	8275473	2
Deletion	Chr3	8845150	8845160	10	OsKitaake03g121000
Deletion	Chr2	13003344	13003361	17
Deletion	Chr12	14415380	14415381	1
Deletion	Chr7	15569240	15569248	8	OsKitaake07g129400
Deletion	Chr11	16636849	16636856	7
Deletion	Chr7	18237593	18237594	1
Deletion	Chr10	20007743	20007745	2
Deletion	Chr11	24033387	24033390	3
Deletion	Chr8	24945001	24988000	42999	2
Deletion	Chr11	25718852	25718855	3
Deletion	Chr6	26673352	26673354	2
Deletion	Chr8	28449854	28449855	1
Deletion	Chr1	31329567	31329579	12
Deletion	Chr3	36511001	36522000	10999	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	10113382	10238975
Inversion	Chr12	10113383	10238980
Inversion	Chr8	24944837	24997955
Inversion	Chr8	24987659	24998003
Inversion	Chr3	29776474	30057030	OsKitaake03g311350
Inversion	Chr3	30057082	30558163	OsKitaake03g320800

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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