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Mutant Information

Mutant Name	FN1258-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1258-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) = Low (Between 25% and 74%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 31

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 4670857 C-A Hetero INTERGENIC
SBS Chr1 8843526 G-A Hetero UTR_3_PRIME
SBS Chr1 37856451 A-T Hetero INTERGENIC
SBS Chr2 9191594 C-A Hetero INTRON
SBS Chr2 25420346 C-A Hetero INTRON
SBS Chr3 2295787 G-A Homo INTERGENIC
SBS Chr3 3969590 G-A Homo INTERGENIC
SBS Chr3 18649809 G-A Homo NON_SYNONYMOUS_CODING OsKitaake03g225400
SBS Chr3 34331846 C-T Hetero UTR_3_PRIME
SBS Chr4 2143674 C-T Hetero INTERGENIC
SBS Chr4 9792384 G-C Homo INTERGENIC
SBS Chr4 15247843 G-A Homo INTERGENIC
SBS Chr4 22424081 C-T Homo SYNONYMOUS_CODING
SBS Chr4 22424085 G-A Homo NON_SYNONYMOUS_CODING OsKitaake04g131600
SBS Chr5 4347487 C-T Homo INTERGENIC
SBS Chr5 9085903 A-T Hetero INTERGENIC
SBS Chr5 15021345 A-T Hetero INTERGENIC
SBS Chr5 23086818 C-T Hetero INTERGENIC
SBS Chr5 26693955 G-A Hetero INTERGENIC
SBS Chr6 8463181 G-A Homo INTERGENIC
SBS Chr7 18030835 G-C Hetero INTERGENIC
SBS Chr8 24782759 G-C Hetero INTERGENIC
SBS Chr8 25548952 T-C Hetero INTERGENIC
SBS Chr9 3336543 C-A Hetero INTERGENIC
SBS Chr9 3336544 T-C Hetero INTERGENIC
SBS Chr9 7846639 A-G Homo INTERGENIC
SBS Chr10 8443749 G-C Hetero INTERGENIC
SBS Chr10 12603570 G-T Hetero INTERGENIC
SBS Chr11 2584950 T-A Hetero INTERGENIC
SBS Chr11 26013637 C-T Hetero INTERGENIC
SBS Chr12 17814179 C-G Homo INTERGENIC

Deletions: 14

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 3391166 3391179 13
Deletion Chr11 3414445 3414447 2
Deletion Chr3 3969356 3969367 11
Deletion Chr4 5797980 5797981 1
Deletion Chr10 9002001 9062000 59999 2
Deletion Chr10 9078001 9166000 87999 OsKitaake10g054000
Deletion Chr3 14719437 14719439 2
Deletion Chr5 17582977 17582984 7
Deletion Chr11 18315556 18315573 17
Deletion Chr4 23987108 23987117 9
Deletion Chr4 25077448 25077449 1
Deletion Chr8 25876478 25876479 1 OsKitaake08g205600
Deletion Chr2 30068234 30068237 3
Deletion Chr1 42732670 42732678 8

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 28145077 28145082 4
Insertion Chr10 13672799 13672807 7
Insertion Chr11 26327683 26327686 2

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr5 13863216 14153085 OsKitaake05g107500

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr12 14998887 Chr4 1264296

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4670857	C-A	Hetero	INTERGENIC
SBS	Chr1	8843526	G-A	Hetero	UTR_3_PRIME
SBS	Chr1	37856451	A-T	Hetero	INTERGENIC
SBS	Chr2	9191594	C-A	Hetero	INTRON
SBS	Chr2	25420346	C-A	Hetero	INTRON
SBS	Chr3	2295787	G-A	Homo	INTERGENIC
SBS	Chr3	3969590	G-A	Homo	INTERGENIC
SBS	Chr3	18649809	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake03g225400
SBS	Chr3	34331846	C-T	Hetero	UTR_3_PRIME
SBS	Chr4	2143674	C-T	Hetero	INTERGENIC
SBS	Chr4	9792384	G-C	Homo	INTERGENIC
SBS	Chr4	15247843	G-A	Homo	INTERGENIC
SBS	Chr4	22424081	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr4	22424085	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake04g131600
SBS	Chr5	4347487	C-T	Homo	INTERGENIC
SBS	Chr5	9085903	A-T	Hetero	INTERGENIC
SBS	Chr5	15021345	A-T	Hetero	INTERGENIC
SBS	Chr5	23086818	C-T	Hetero	INTERGENIC
SBS	Chr5	26693955	G-A	Hetero	INTERGENIC
SBS	Chr6	8463181	G-A	Homo	INTERGENIC
SBS	Chr7	18030835	G-C	Hetero	INTERGENIC
SBS	Chr8	24782759	G-C	Hetero	INTERGENIC
SBS	Chr8	25548952	T-C	Hetero	INTERGENIC
SBS	Chr9	3336543	C-A	Hetero	INTERGENIC
SBS	Chr9	3336544	T-C	Hetero	INTERGENIC
SBS	Chr9	7846639	A-G	Homo	INTERGENIC
SBS	Chr10	8443749	G-C	Hetero	INTERGENIC
SBS	Chr10	12603570	G-T	Hetero	INTERGENIC
SBS	Chr11	2584950	T-A	Hetero	INTERGENIC
SBS	Chr11	26013637	C-T	Hetero	INTERGENIC
SBS	Chr12	17814179	C-G	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	3391166	3391179	13
Deletion	Chr11	3414445	3414447	2
Deletion	Chr3	3969356	3969367	11
Deletion	Chr4	5797980	5797981	1
Deletion	Chr10	9002001	9062000	59999	2
Deletion	Chr10	9078001	9166000	87999	OsKitaake10g054000
Deletion	Chr3	14719437	14719439	2
Deletion	Chr5	17582977	17582984	7
Deletion	Chr11	18315556	18315573	17
Deletion	Chr4	23987108	23987117	9
Deletion	Chr4	25077448	25077449	1
Deletion	Chr8	25876478	25876479	1	OsKitaake08g205600
Deletion	Chr2	30068234	30068237	3
Deletion	Chr1	42732670	42732678	8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	13863216	14153085	OsKitaake05g107500

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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