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Mutant Information

Mutant Name	FN-393 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-393 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 20

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 23384327 G-T Hetero INTERGENIC
SBS Chr1 28165996 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake01g273700
SBS Chr3 28395480 G-A Homo NON_SYNONYMOUS_CODING OsKitaake03g293900
SBS Chr3 32005088 T-C Homo NON_SYNONYMOUS_CODING OsKitaake03g339000
SBS Chr4 32298869 C-G Hetero SYNONYMOUS_CODING
SBS Chr5 2924466 A-G Homo INTERGENIC
SBS Chr5 10185856 C-T Hetero INTERGENIC
SBS Chr8 27812695 C-T Homo SPLICE_SITE_REGION
SBS Chr8 27812696 T-A Homo UTR_5_PRIME
SBS Chr8 27812697 G-A Homo UTR_5_PRIME
SBS Chr9 3416675 G-T Hetero INTERGENIC
SBS Chr9 4001072 C-T Homo INTERGENIC
SBS Chr10 12528327 C-T Hetero INTERGENIC
SBS Chr11 1165779 A-G Homo INTERGENIC
SBS Chr11 19254024 G-A Hetero INTERGENIC
SBS Chr11 23264544 G-T Homo INTERGENIC
SBS Chr11 23790377 C-T Homo INTERGENIC
SBS Chr11 25024500 G-C Homo INTERGENIC
SBS Chr11 25118447 T-C Homo INTERGENIC
SBS Chr12 19001295 G-A Homo INTERGENIC

Deletions: 16

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 1457749 1457750 1
Deletion Chr5 3714656 3714658 2
Deletion Chr9 8100676 8100677 1
Deletion Chr6 9675445 9675455 10
Deletion Chr10 9880646 9880648 2 OsKitaake10g057700
Deletion Chr4 10379191 10379197 6
Deletion Chr6 10799685 10799687 2
Deletion Chr12 11719649 11719804 155
Deletion Chr7 13003084 13003253 169
Deletion Chr5 15447051 15447059 8
Deletion Chr10 19609967 19609973 6
Deletion Chr1 21765199 21765201 2
Deletion Chr10 22898706 22898708 2 OsKitaake10g191200
Deletion Chr7 23198334 23198424 90
Deletion Chr6 25050255 25050473 218 OsKitaake06g222100
Deletion Chr3 25862452 25862453 1

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 32298858 32298861 2 OsKitaake04g257400
Insertion Chr7 12020386 12020388 1

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	23384327	G-T	Hetero	INTERGENIC
SBS	Chr1	28165996	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g273700
SBS	Chr3	28395480	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake03g293900
SBS	Chr3	32005088	T-C	Homo	NON_SYNONYMOUS_CODING	OsKitaake03g339000
SBS	Chr4	32298869	C-G	Hetero	SYNONYMOUS_CODING
SBS	Chr5	2924466	A-G	Homo	INTERGENIC
SBS	Chr5	10185856	C-T	Hetero	INTERGENIC
SBS	Chr8	27812695	C-T	Homo	SPLICE_SITE_REGION
SBS	Chr8	27812696	T-A	Homo	UTR_5_PRIME
SBS	Chr8	27812697	G-A	Homo	UTR_5_PRIME
SBS	Chr9	3416675	G-T	Hetero	INTERGENIC
SBS	Chr9	4001072	C-T	Homo	INTERGENIC
SBS	Chr10	12528327	C-T	Hetero	INTERGENIC
SBS	Chr11	1165779	A-G	Homo	INTERGENIC
SBS	Chr11	19254024	G-A	Hetero	INTERGENIC
SBS	Chr11	23264544	G-T	Homo	INTERGENIC
SBS	Chr11	23790377	C-T	Homo	INTERGENIC
SBS	Chr11	25024500	G-C	Homo	INTERGENIC
SBS	Chr11	25118447	T-C	Homo	INTERGENIC
SBS	Chr12	19001295	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	1457749	1457750	1
Deletion	Chr5	3714656	3714658	2
Deletion	Chr9	8100676	8100677	1
Deletion	Chr6	9675445	9675455	10
Deletion	Chr10	9880646	9880648	2	OsKitaake10g057700
Deletion	Chr4	10379191	10379197	6
Deletion	Chr6	10799685	10799687	2
Deletion	Chr12	11719649	11719804	155
Deletion	Chr7	13003084	13003253	169
Deletion	Chr5	15447051	15447059	8
Deletion	Chr10	19609967	19609973	6
Deletion	Chr1	21765199	21765201	2
Deletion	Chr10	22898706	22898708	2	OsKitaake10g191200
Deletion	Chr7	23198334	23198424	90
Deletion	Chr6	25050255	25050473	218	OsKitaake06g222100
Deletion	Chr3	25862452	25862453	1

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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