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Mutant Information

Mutant Name	FN1740-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1740-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 22

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 34033982 A-G Homo INTRON
SBS Chr2 14959727 G-A Hetero INTERGENIC
SBS Chr2 29167220 C-A Hetero INTERGENIC
SBS Chr3 17406279 T-C Hetero INTERGENIC
SBS Chr3 21862950 T-A Hetero STOP_GAINED OsKitaake03g239800
SBS Chr3 24414341 C-T Hetero INTERGENIC
SBS Chr3 29802063 C-T Hetero INTERGENIC
SBS Chr4 32428910 T-C Homo INTRON
SBS Chr5 12434521 G-T Homo INTERGENIC
SBS Chr5 14219610 G-A Homo NON_SYNONYMOUS_CODING OsKitaake05g109000
SBS Chr5 20427433 C-A Homo INTERGENIC
SBS Chr6 9438590 G-T Hetero INTERGENIC
SBS Chr6 14604967 C-T Hetero INTRON
SBS Chr7 27553186 G-A Hetero INTERGENIC
SBS Chr9 2555677 C-T Hetero INTERGENIC
SBS Chr10 357241 T-C Hetero INTRON
SBS Chr10 3196334 G-A Hetero INTRON
SBS Chr10 8963292 C-T Hetero INTERGENIC
SBS Chr10 20753350 C-T Hetero INTERGENIC
SBS Chr11 1827447 C-A Hetero INTRON
SBS Chr11 24196977 C-T Hetero UTR_5_PRIME
SBS Chr11 28158505 G-C Hetero INTERGENIC

Deletions: 14

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 4736666 4736676 10
Deletion Chr11 9949561 9949568 7 OsKitaake11g101500
Deletion Chr10 10438096 10438098 2
Deletion Chr12 10946263 10946270 7
Deletion Chr5 10995024 10995025 1
Deletion Chr12 11014408 11014423 15
Deletion Chr8 13263162 13263165 3
Deletion Chr10 16532761 16532762 1
Deletion Chr4 17449830 17449838 8
Deletion Chr6 19110088 19110089 1
Deletion Chr7 20582529 20582541 12
Deletion Chr12 26224263 26224265 2 OsKitaake12g217400
Deletion Chr1 34593227 34593243 16
Deletion Chr4 34789526 34789528 2

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 27275459 27275462 2
Insertion Chr6 16652969 16652972 2
Insertion Chr7 28157969 28157971 1
Insertion Chr10 4916679 4916681 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr9 14973926 15058154 OsKitaake09g104300
Inversion Chr9 14973927 15058152 OsKitaake09g104300

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	34033982	A-G	Homo	INTRON
SBS	Chr2	14959727	G-A	Hetero	INTERGENIC
SBS	Chr2	29167220	C-A	Hetero	INTERGENIC
SBS	Chr3	17406279	T-C	Hetero	INTERGENIC
SBS	Chr3	21862950	T-A	Hetero	STOP_GAINED	OsKitaake03g239800
SBS	Chr3	24414341	C-T	Hetero	INTERGENIC
SBS	Chr3	29802063	C-T	Hetero	INTERGENIC
SBS	Chr4	32428910	T-C	Homo	INTRON
SBS	Chr5	12434521	G-T	Homo	INTERGENIC
SBS	Chr5	14219610	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake05g109000
SBS	Chr5	20427433	C-A	Homo	INTERGENIC
SBS	Chr6	9438590	G-T	Hetero	INTERGENIC
SBS	Chr6	14604967	C-T	Hetero	INTRON
SBS	Chr7	27553186	G-A	Hetero	INTERGENIC
SBS	Chr9	2555677	C-T	Hetero	INTERGENIC
SBS	Chr10	357241	T-C	Hetero	INTRON
SBS	Chr10	3196334	G-A	Hetero	INTRON
SBS	Chr10	8963292	C-T	Hetero	INTERGENIC
SBS	Chr10	20753350	C-T	Hetero	INTERGENIC
SBS	Chr11	1827447	C-A	Hetero	INTRON
SBS	Chr11	24196977	C-T	Hetero	UTR_5_PRIME
SBS	Chr11	28158505	G-C	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	4736666	4736676	10
Deletion	Chr11	9949561	9949568	7	OsKitaake11g101500
Deletion	Chr10	10438096	10438098	2
Deletion	Chr12	10946263	10946270	7
Deletion	Chr5	10995024	10995025	1
Deletion	Chr12	11014408	11014423	15
Deletion	Chr8	13263162	13263165	3
Deletion	Chr10	16532761	16532762	1
Deletion	Chr4	17449830	17449838	8
Deletion	Chr6	19110088	19110089	1
Deletion	Chr7	20582529	20582541	12
Deletion	Chr12	26224263	26224265	2	OsKitaake12g217400
Deletion	Chr1	34593227	34593243	16
Deletion	Chr4	34789526	34789528	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	14973926	15058154	OsKitaake09g104300
Inversion	Chr9	14973927	15058152	OsKitaake09g104300

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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