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Mutant Information

Mutant Name	FN1366-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1366-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 1290419 G-A Hetero INTERGENIC
SBS Chr1 1904732 C-T Hetero UTR_3_PRIME
SBS Chr1 9901011 T-A Homo INTRON
SBS Chr1 10736231 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake01g133000
SBS Chr1 12695932 G-A Homo INTRON
SBS Chr1 13050677 A-G Hetero INTERGENIC
SBS Chr1 21966438 C-G Homo INTRON
SBS Chr1 36509229 A-T Hetero INTERGENIC
SBS Chr1 41808829 C-T Hetero INTERGENIC
SBS Chr2 5373643 T-G Hetero UTR_5_PRIME
SBS Chr2 6922088 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake02g094101
SBS Chr2 6925322 G-T Hetero INTERGENIC
SBS Chr2 8377878 G-C Hetero INTERGENIC
SBS Chr2 14124348 G-A Hetero INTERGENIC
SBS Chr2 22767064 T-A Hetero NON_SYNONYMOUS_CODING OsKitaake02g221100
SBS Chr2 28704013 G-C Hetero INTRON
SBS Chr2 31978407 A-C Homo INTERGENIC
SBS Chr3 3743840 G-A Hetero INTERGENIC
SBS Chr3 14026432 C-T Homo INTERGENIC
SBS Chr3 21353520 C-T Hetero INTRON
SBS Chr3 24192077 A-T Hetero NON_SYNONYMOUS_CODING OsKitaake03g258400
SBS Chr4 3466686 A-C Hetero INTERGENIC
SBS Chr4 4030029 A-G Hetero INTERGENIC
SBS Chr4 4512277 G-A Hetero INTERGENIC
SBS Chr4 8903907 G-A Hetero INTERGENIC
SBS Chr4 28110764 G-C Homo INTERGENIC
SBS Chr5 3539266 C-A Homo SYNONYMOUS_CODING
SBS Chr5 3539990 T-C Homo INTERGENIC
SBS Chr5 5757172 C-A Hetero INTERGENIC
SBS Chr5 15398121 G-A Homo INTERGENIC
SBS Chr5 19836438 C-T Hetero INTRON
SBS Chr5 20710657 C-A Hetero INTERGENIC
SBS Chr5 21329589 C-G Hetero INTERGENIC
SBS Chr6 7962025 G-C Homo INTERGENIC
SBS Chr6 16729778 C-T Hetero INTERGENIC
SBS Chr6 17192339 C-A Hetero INTERGENIC
SBS Chr6 17409718 G-T Hetero INTERGENIC
SBS Chr6 17409719 A-G Hetero INTERGENIC
SBS Chr7 8780786 T-A Hetero INTERGENIC
SBS Chr7 9658670 G-A Hetero INTERGENIC
SBS Chr7 20653935 G-A Hetero INTRON
SBS Chr7 23791720 T-G Hetero INTRON
SBS Chr8 16817462 C-A Hetero INTERGENIC
SBS Chr8 21078527 A-G Hetero INTERGENIC
SBS Chr9 3196930 C-A Homo INTERGENIC
SBS Chr9 21333692 T-G Hetero INTERGENIC
SBS Chr10 4738454 C-T Hetero INTERGENIC
SBS Chr10 14965812 T-A Hetero START_GAINED
SBS Chr10 17762035 T-A Homo INTERGENIC
SBS Chr11 20445065 T-C Hetero INTERGENIC
SBS Chr11 25071812 C-A Hetero INTRON
SBS Chr12 10532172 A-T Homo INTERGENIC
SBS Chr12 13309605 G-A Homo INTERGENIC

Deletions: 19

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 2057740 2057742 2
Deletion Chr4 2168206 2168207 1
Deletion Chr2 3093359 3093368 9 OsKitaake02g044200
Deletion Chr9 7421375 7421379 4
Deletion Chr9 7426669 7426670 1
Deletion Chr12 7646644 7646659 15
Deletion Chr5 7666313 7666314 1
Deletion Chr8 11684741 11684742 1
Deletion Chr8 12222221 12222239 18
Deletion Chr10 13588904 13588905 1
Deletion Chr7 14030617 14030818 201 OsKitaake07g121100
Deletion Chr12 14364304 14364306 2
Deletion Chr6 14513737 14513742 5
Deletion Chr3 20575387 20575388 1
Deletion Chr4 22832205 22832206 1 OsKitaake04g137300
Deletion Chr4 23090710 23090711 1
Deletion Chr8 24508561 24508563 2
Deletion Chr4 27630095 27630098 3 OsKitaake04g202800
Deletion Chr2 33822151 33822153 2

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 18604514 18604517 2
Insertion Chr7 12469283 12469286 2
Insertion Chr12 228048 228053 4

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 17607302 18167443
Inversion Chr8 17607310 18167452
Inversion Chr7 20563221 21554687
Inversion Chr7 20563237 21554687

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1290419	G-A	Hetero	INTERGENIC
SBS	Chr1	1904732	C-T	Hetero	UTR_3_PRIME
SBS	Chr1	9901011	T-A	Homo	INTRON
SBS	Chr1	10736231	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g133000
SBS	Chr1	12695932	G-A	Homo	INTRON
SBS	Chr1	13050677	A-G	Hetero	INTERGENIC
SBS	Chr1	21966438	C-G	Homo	INTRON
SBS	Chr1	36509229	A-T	Hetero	INTERGENIC
SBS	Chr1	41808829	C-T	Hetero	INTERGENIC
SBS	Chr2	5373643	T-G	Hetero	UTR_5_PRIME
SBS	Chr2	6922088	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake02g094101
SBS	Chr2	6925322	G-T	Hetero	INTERGENIC
SBS	Chr2	8377878	G-C	Hetero	INTERGENIC
SBS	Chr2	14124348	G-A	Hetero	INTERGENIC
SBS	Chr2	22767064	T-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake02g221100
SBS	Chr2	28704013	G-C	Hetero	INTRON
SBS	Chr2	31978407	A-C	Homo	INTERGENIC
SBS	Chr3	3743840	G-A	Hetero	INTERGENIC
SBS	Chr3	14026432	C-T	Homo	INTERGENIC
SBS	Chr3	21353520	C-T	Hetero	INTRON
SBS	Chr3	24192077	A-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g258400
SBS	Chr4	3466686	A-C	Hetero	INTERGENIC
SBS	Chr4	4030029	A-G	Hetero	INTERGENIC
SBS	Chr4	4512277	G-A	Hetero	INTERGENIC
SBS	Chr4	8903907	G-A	Hetero	INTERGENIC
SBS	Chr4	28110764	G-C	Homo	INTERGENIC
SBS	Chr5	3539266	C-A	Homo	SYNONYMOUS_CODING
SBS	Chr5	3539990	T-C	Homo	INTERGENIC
SBS	Chr5	5757172	C-A	Hetero	INTERGENIC
SBS	Chr5	15398121	G-A	Homo	INTERGENIC
SBS	Chr5	19836438	C-T	Hetero	INTRON
SBS	Chr5	20710657	C-A	Hetero	INTERGENIC
SBS	Chr5	21329589	C-G	Hetero	INTERGENIC
SBS	Chr6	7962025	G-C	Homo	INTERGENIC
SBS	Chr6	16729778	C-T	Hetero	INTERGENIC
SBS	Chr6	17192339	C-A	Hetero	INTERGENIC
SBS	Chr6	17409718	G-T	Hetero	INTERGENIC
SBS	Chr6	17409719	A-G	Hetero	INTERGENIC
SBS	Chr7	8780786	T-A	Hetero	INTERGENIC
SBS	Chr7	9658670	G-A	Hetero	INTERGENIC
SBS	Chr7	20653935	G-A	Hetero	INTRON
SBS	Chr7	23791720	T-G	Hetero	INTRON
SBS	Chr8	16817462	C-A	Hetero	INTERGENIC
SBS	Chr8	21078527	A-G	Hetero	INTERGENIC
SBS	Chr9	3196930	C-A	Homo	INTERGENIC
SBS	Chr9	21333692	T-G	Hetero	INTERGENIC
SBS	Chr10	4738454	C-T	Hetero	INTERGENIC
SBS	Chr10	14965812	T-A	Hetero	START_GAINED
SBS	Chr10	17762035	T-A	Homo	INTERGENIC
SBS	Chr11	20445065	T-C	Hetero	INTERGENIC
SBS	Chr11	25071812	C-A	Hetero	INTRON
SBS	Chr12	10532172	A-T	Homo	INTERGENIC
SBS	Chr12	13309605	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	2057740	2057742	2
Deletion	Chr4	2168206	2168207	1
Deletion	Chr2	3093359	3093368	9	OsKitaake02g044200
Deletion	Chr9	7421375	7421379	4
Deletion	Chr9	7426669	7426670	1
Deletion	Chr12	7646644	7646659	15
Deletion	Chr5	7666313	7666314	1
Deletion	Chr8	11684741	11684742	1
Deletion	Chr8	12222221	12222239	18
Deletion	Chr10	13588904	13588905	1
Deletion	Chr7	14030617	14030818	201	OsKitaake07g121100
Deletion	Chr12	14364304	14364306	2
Deletion	Chr6	14513737	14513742	5
Deletion	Chr3	20575387	20575388	1
Deletion	Chr4	22832205	22832206	1	OsKitaake04g137300
Deletion	Chr4	23090710	23090711	1
Deletion	Chr8	24508561	24508563	2
Deletion	Chr4	27630095	27630098	3	OsKitaake04g202800
Deletion	Chr2	33822151	33822153	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	17607302	18167443
Inversion	Chr8	17607310	18167452
Inversion	Chr7	20563221	21554687
Inversion	Chr7	20563237	21554687

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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