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Mutant Information

Mutant Name	FN1436-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1436-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) = Very Low (Below 24%) 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 30840465 A-C Homo INTRON
SBS Chr1 41201098 C-A Hetero INTERGENIC
SBS Chr2 4550054 G-A Hetero INTERGENIC
SBS Chr2 9482687 G-A Hetero INTERGENIC
SBS Chr2 18126773 G-A Hetero INTRON
SBS Chr2 19329810 T-A Hetero INTRON
SBS Chr2 19548728 T-G Hetero INTERGENIC
SBS Chr2 28621171 C-T Hetero INTERGENIC
SBS Chr3 2177034 C-G Homo INTERGENIC
SBS Chr3 24789129 C-T Hetero INTERGENIC
SBS Chr4 3477226 C-A Hetero INTERGENIC
SBS Chr4 22938950 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake04g138600
SBS Chr4 36609167 C-A Homo INTERGENIC
SBS Chr5 7019536 C-T Hetero INTRON
SBS Chr5 9669696 G-T Hetero UTR_5_PRIME
SBS Chr6 20152599 G-T Homo SYNONYMOUS_CODING
SBS Chr7 1201571 G-A Hetero SYNONYMOUS_CODING
SBS Chr7 6605538 G-A Homo INTERGENIC
SBS Chr7 6605540 G-A Homo INTERGENIC
SBS Chr7 6605544 G-T Homo INTERGENIC
SBS Chr7 9605891 G-A Homo INTERGENIC
SBS Chr7 12035971 A-C Hetero INTERGENIC
SBS Chr7 20913448 C-T Hetero SYNONYMOUS_CODING
SBS Chr7 25050726 G-A Hetero INTERGENIC
SBS Chr7 27810232 A-T Hetero UTR_5_PRIME
SBS Chr8 1553725 A-G Hetero INTERGENIC
SBS Chr8 9562910 G-A Hetero INTERGENIC
SBS Chr8 22625056 A-G Hetero SPLICE_SITE_REGION
SBS Chr8 22726512 C-A Hetero INTERGENIC
SBS Chr8 22726513 C-A Hetero INTERGENIC
SBS Chr9 5944332 G-T Homo INTRON
SBS Chr9 6675563 G-C Hetero INTERGENIC
SBS Chr9 9482211 G-C Hetero INTRON
SBS Chr10 18224785 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake10g128800
SBS Chr11 5676612 C-A Hetero INTERGENIC
SBS Chr11 14005300 A-G Hetero INTERGENIC
SBS Chr11 16550514 C-A Hetero INTERGENIC
SBS Chr11 20942998 A-T Hetero INTERGENIC
SBS Chr11 27876960 G-A Hetero INTRON
SBS Chr12 19766023 C-T Hetero INTERGENIC

Deletions: 10

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr11 5471904 5471906 2
Deletion Chr2 5506689 5506691 2
Deletion Chr5 15272805 15272807 2
Deletion Chr3 15611129 15611131 2
Deletion Chr1 17283622 17284286 664
Deletion Chr12 24592180 24592193 13
Deletion Chr2 24976941 24976942 1
Deletion Chr3 27053545 27053546 1 OsKitaake03g278700
Deletion Chr5 27998207 27998213 6
Deletion Chr4 36235314 36235318 4

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr6 10871159 10871162 2 OsKitaake06g121250
Insertion Chr10 23539482 23539487 4

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 19246883 19492976 OsKitaake02g188300
Inversion Chr2 19246885 19492978 OsKitaake02g188300

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	30840465	A-C	Homo	INTRON
SBS	Chr1	41201098	C-A	Hetero	INTERGENIC
SBS	Chr2	4550054	G-A	Hetero	INTERGENIC
SBS	Chr2	9482687	G-A	Hetero	INTERGENIC
SBS	Chr2	18126773	G-A	Hetero	INTRON
SBS	Chr2	19329810	T-A	Hetero	INTRON
SBS	Chr2	19548728	T-G	Hetero	INTERGENIC
SBS	Chr2	28621171	C-T	Hetero	INTERGENIC
SBS	Chr3	2177034	C-G	Homo	INTERGENIC
SBS	Chr3	24789129	C-T	Hetero	INTERGENIC
SBS	Chr4	3477226	C-A	Hetero	INTERGENIC
SBS	Chr4	22938950	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g138600
SBS	Chr4	36609167	C-A	Homo	INTERGENIC
SBS	Chr5	7019536	C-T	Hetero	INTRON
SBS	Chr5	9669696	G-T	Hetero	UTR_5_PRIME
SBS	Chr6	20152599	G-T	Homo	SYNONYMOUS_CODING
SBS	Chr7	1201571	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr7	6605538	G-A	Homo	INTERGENIC
SBS	Chr7	6605540	G-A	Homo	INTERGENIC
SBS	Chr7	6605544	G-T	Homo	INTERGENIC
SBS	Chr7	9605891	G-A	Homo	INTERGENIC
SBS	Chr7	12035971	A-C	Hetero	INTERGENIC
SBS	Chr7	20913448	C-T	Hetero	SYNONYMOUS_CODING
SBS	Chr7	25050726	G-A	Hetero	INTERGENIC
SBS	Chr7	27810232	A-T	Hetero	UTR_5_PRIME
SBS	Chr8	1553725	A-G	Hetero	INTERGENIC
SBS	Chr8	9562910	G-A	Hetero	INTERGENIC
SBS	Chr8	22625056	A-G	Hetero	SPLICE_SITE_REGION
SBS	Chr8	22726512	C-A	Hetero	INTERGENIC
SBS	Chr8	22726513	C-A	Hetero	INTERGENIC
SBS	Chr9	5944332	G-T	Homo	INTRON
SBS	Chr9	6675563	G-C	Hetero	INTERGENIC
SBS	Chr9	9482211	G-C	Hetero	INTRON
SBS	Chr10	18224785	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake10g128800
SBS	Chr11	5676612	C-A	Hetero	INTERGENIC
SBS	Chr11	14005300	A-G	Hetero	INTERGENIC
SBS	Chr11	16550514	C-A	Hetero	INTERGENIC
SBS	Chr11	20942998	A-T	Hetero	INTERGENIC
SBS	Chr11	27876960	G-A	Hetero	INTRON
SBS	Chr12	19766023	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr11	5471904	5471906	2
Deletion	Chr2	5506689	5506691	2
Deletion	Chr5	15272805	15272807	2
Deletion	Chr3	15611129	15611131	2
Deletion	Chr1	17283622	17284286	664
Deletion	Chr12	24592180	24592193	13
Deletion	Chr2	24976941	24976942	1
Deletion	Chr3	27053545	27053546	1	OsKitaake03g278700
Deletion	Chr5	27998207	27998213	6
Deletion	Chr4	36235314	36235318	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	19246883	19492976	OsKitaake02g188300
Inversion	Chr2	19246885	19492978	OsKitaake02g188300

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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