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Mutant Information

Mutant Name	FN1416-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1416-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: 39

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 14064012 T-G Hetero INTERGENIC
SBS Chr1 25717403 T-G Hetero INTERGENIC
SBS Chr1 27438345 A-G Homo INTERGENIC
SBS Chr1 32986446 T-C Homo INTERGENIC
SBS Chr2 1078823 C-T Hetero INTRON
SBS Chr2 27183462 G-A Hetero SYNONYMOUS_CODING
SBS Chr2 27884796 C-T Hetero INTERGENIC
SBS Chr3 1718943 C-T Homo INTRON
SBS Chr3 14010657 T-A Hetero INTERGENIC
SBS Chr3 15887227 G-A Hetero INTERGENIC
SBS Chr3 26248384 T-G Homo INTERGENIC
SBS Chr4 1279436 G-T Hetero INTRON
SBS Chr4 1723411 C-T Hetero INTERGENIC
SBS Chr4 2234677 C-A Hetero INTERGENIC
SBS Chr4 6414450 A-G Hetero INTERGENIC
SBS Chr4 11152502 T-C Hetero INTERGENIC
SBS Chr4 17753676 A-C Hetero INTERGENIC
SBS Chr4 19006692 A-T Hetero INTERGENIC
SBS Chr4 19006693 C-T Hetero INTERGENIC
SBS Chr4 26165041 A-T Hetero INTERGENIC
SBS Chr5 24349789 A-C Hetero INTERGENIC
SBS Chr6 29405261 T-C Hetero INTRON
SBS Chr7 239666 T-A Hetero INTERGENIC
SBS Chr7 12130742 C-A Hetero INTERGENIC
SBS Chr7 18029158 A-T Hetero SPLICE_SITE_REGION
SBS Chr8 7021823 G-T Homo INTERGENIC
SBS Chr8 7494084 C-T Homo INTERGENIC
SBS Chr8 23938226 G-T Hetero UTR_3_PRIME
SBS Chr9 2437203 C-T Homo INTERGENIC
SBS Chr9 3213741 T-C Hetero INTERGENIC
SBS Chr10 2096736 A-C Hetero INTERGENIC
SBS Chr10 10417209 A-C Hetero INTERGENIC
SBS Chr10 10428995 G-A Hetero INTERGENIC
SBS Chr10 10428996 C-A Hetero INTERGENIC
SBS Chr10 14124231 G-T Hetero INTERGENIC
SBS Chr11 15378761 G-A Homo INTERGENIC
SBS Chr11 28890309 G-A Hetero INTRON
SBS Chr12 1004056 C-T Hetero INTRON
SBS Chr12 8728776 C-A Homo INTERGENIC

Deletions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr3 1463257 1463258 1
Deletion Chr3 9719931 9719948 17
Deletion Chr8 11988391 11988393 2
Deletion Chr9 15811651 15811659 8
Deletion Chr8 23471001 23567000 95999 6
Deletion Chr1 24272078 24272081 3
Deletion Chr5 27779471 27779473 2
Deletion Chr1 28220216 28220217 1
Deletion Chr3 29781033 29781036 3
Deletion Chr3 31663173 31663183 10
Deletion Chr3 33271507 33271514 7

Insertions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 30184562 30184565 2
Insertion Chr3 2897286 2897292 5
Insertion Chr3 22948605 22948608 2
Insertion Chr6 7890827 7890830 2
Insertion Chr11 19013479 19013487 7
Insertion Chr5 29939081 29939084 2
Insertion Chr7 12248929 12248931 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 9425154 10031558 2
Inversion Chr10 10031579 10459089 OsKitaake10g058500
Inversion Chr4 20189283 20608432 OsKitaake04g106900
Inversion Chr4 20189379 20608431 OsKitaake04g106900

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	14064012	T-G	Hetero	INTERGENIC
SBS	Chr1	25717403	T-G	Hetero	INTERGENIC
SBS	Chr1	27438345	A-G	Homo	INTERGENIC
SBS	Chr1	32986446	T-C	Homo	INTERGENIC
SBS	Chr2	1078823	C-T	Hetero	INTRON
SBS	Chr2	27183462	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr2	27884796	C-T	Hetero	INTERGENIC
SBS	Chr3	1718943	C-T	Homo	INTRON
SBS	Chr3	14010657	T-A	Hetero	INTERGENIC
SBS	Chr3	15887227	G-A	Hetero	INTERGENIC
SBS	Chr3	26248384	T-G	Homo	INTERGENIC
SBS	Chr4	1279436	G-T	Hetero	INTRON
SBS	Chr4	1723411	C-T	Hetero	INTERGENIC
SBS	Chr4	2234677	C-A	Hetero	INTERGENIC
SBS	Chr4	6414450	A-G	Hetero	INTERGENIC
SBS	Chr4	11152502	T-C	Hetero	INTERGENIC
SBS	Chr4	17753676	A-C	Hetero	INTERGENIC
SBS	Chr4	19006692	A-T	Hetero	INTERGENIC
SBS	Chr4	19006693	C-T	Hetero	INTERGENIC
SBS	Chr4	26165041	A-T	Hetero	INTERGENIC
SBS	Chr5	24349789	A-C	Hetero	INTERGENIC
SBS	Chr6	29405261	T-C	Hetero	INTRON
SBS	Chr7	239666	T-A	Hetero	INTERGENIC
SBS	Chr7	12130742	C-A	Hetero	INTERGENIC
SBS	Chr7	18029158	A-T	Hetero	SPLICE_SITE_REGION
SBS	Chr8	7021823	G-T	Homo	INTERGENIC
SBS	Chr8	7494084	C-T	Homo	INTERGENIC
SBS	Chr8	23938226	G-T	Hetero	UTR_3_PRIME
SBS	Chr9	2437203	C-T	Homo	INTERGENIC
SBS	Chr9	3213741	T-C	Hetero	INTERGENIC
SBS	Chr10	2096736	A-C	Hetero	INTERGENIC
SBS	Chr10	10417209	A-C	Hetero	INTERGENIC
SBS	Chr10	10428995	G-A	Hetero	INTERGENIC
SBS	Chr10	10428996	C-A	Hetero	INTERGENIC
SBS	Chr10	14124231	G-T	Hetero	INTERGENIC
SBS	Chr11	15378761	G-A	Homo	INTERGENIC
SBS	Chr11	28890309	G-A	Hetero	INTRON
SBS	Chr12	1004056	C-T	Hetero	INTRON
SBS	Chr12	8728776	C-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr3	1463257	1463258	1
Deletion	Chr3	9719931	9719948	17
Deletion	Chr8	11988391	11988393	2
Deletion	Chr9	15811651	15811659	8
Deletion	Chr8	23471001	23567000	95999	6
Deletion	Chr1	24272078	24272081	3
Deletion	Chr5	27779471	27779473	2
Deletion	Chr1	28220216	28220217	1
Deletion	Chr3	29781033	29781036	3
Deletion	Chr3	31663173	31663183	10
Deletion	Chr3	33271507	33271514	7

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	9425154	10031558	2
Inversion	Chr10	10031579	10459089	OsKitaake10g058500
Inversion	Chr4	20189283	20608432	OsKitaake04g106900
Inversion	Chr4	20189379	20608431	OsKitaake04g106900

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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