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Mutant Information

Mutant Name	FN684-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN684-S 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: 33

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 4462642 A-G Homo INTERGENIC
SBS Chr1 6982846 C-A Homo NON_SYNONYMOUS_CODING OsKitaake01g087800
SBS Chr1 6982847 T-A Homo NON_SYNONYMOUS_CODING OsKitaake01g087800
SBS Chr1 28543272 G-A Hetero INTERGENIC
SBS Chr1 32820383 T-G Homo INTRON
SBS Chr2 16619075 G-A Homo INTERGENIC
SBS Chr3 19654017 C-T Hetero INTERGENIC
SBS Chr4 33024895 C-T Hetero INTERGENIC
SBS Chr5 9771014 G-T Hetero INTERGENIC
SBS Chr5 10844646 C-T Hetero INTERGENIC
SBS Chr5 14414195 G-A Hetero INTERGENIC
SBS Chr5 16130260 T-C Hetero INTERGENIC
SBS Chr5 17564174 C-A Hetero INTERGENIC
SBS Chr6 6053878 T-C Hetero INTERGENIC
SBS Chr7 10043654 G-A Homo INTERGENIC
SBS Chr7 10043655 G-C Homo INTERGENIC
SBS Chr7 10135762 T-A Homo INTERGENIC
SBS Chr7 22054631 C-T Hetero INTERGENIC
SBS Chr7 23746986 A-T Hetero INTERGENIC
SBS Chr7 25671242 C-T Hetero INTERGENIC
SBS Chr8 813791 G-A Hetero INTERGENIC
SBS Chr8 25459327 C-A Homo NON_SYNONYMOUS_CODING OsKitaake08g200050
SBS Chr9 1431554 G-T Hetero INTERGENIC
SBS Chr9 2226064 G-T Hetero INTERGENIC
SBS Chr9 2364475 G-T Hetero INTERGENIC
SBS Chr9 2364476 C-T Hetero INTERGENIC
SBS Chr9 11918976 G-C Hetero INTRON
SBS Chr10 9649379 G-A Hetero INTERGENIC
SBS Chr10 18025062 T-A Hetero INTERGENIC
SBS Chr10 20163587 A-T Hetero START_GAINED
SBS Chr11 8844862 G-T Hetero INTERGENIC
SBS Chr11 24308932 C-T Hetero INTERGENIC
SBS Chr12 4313671 C-T Hetero INTERGENIC

Deletions: 18

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr8 3280416 3280417 1
Deletion Chr11 5831927 5832153 226
Deletion Chr8 9041001 9129000 87999 5
Deletion Chr10 9983862 9983863 1
Deletion Chr4 11653961 11653965 4
Deletion Chr5 12312001 12393000 80999 3
Deletion Chr5 12404001 12423000 18999
Deletion Chr5 12428001 12456000 27999 OsKitaake05g098001
Deletion Chr2 13351670 13351672 2
Deletion Chr9 15021505 15021508 3
Deletion Chr10 16218492 16218501 9
Deletion Chr9 19851001 19872000 20999 5
Deletion Chr4 19988469 19988470 1
Deletion Chr12 20616723 20616724 1
Deletion Chr1 22882770 22882772 2
Deletion Chr1 26737928 26737933 5
Deletion Chr1 32662630 32662642 12
Deletion Chr2 35296017 35296024 7

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 22693376 22693379 2
Insertion Chr6 8900658 8900661 2
Insertion Chr7 7942323 7942326 2
Insertion Chr10 8744689 8744696 6
Insertion Chr11 9232378 9232381 2
Insertion Chr12 26049535 26049537 1

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr8 20598949 Chr1 18039017
Translocation Chr8 20598999 Chr1 18037634

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4462642	A-G	Homo	INTERGENIC
SBS	Chr1	6982846	C-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g087800
SBS	Chr1	6982847	T-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g087800
SBS	Chr1	28543272	G-A	Hetero	INTERGENIC
SBS	Chr1	32820383	T-G	Homo	INTRON
SBS	Chr2	16619075	G-A	Homo	INTERGENIC
SBS	Chr3	19654017	C-T	Hetero	INTERGENIC
SBS	Chr4	33024895	C-T	Hetero	INTERGENIC
SBS	Chr5	9771014	G-T	Hetero	INTERGENIC
SBS	Chr5	10844646	C-T	Hetero	INTERGENIC
SBS	Chr5	14414195	G-A	Hetero	INTERGENIC
SBS	Chr5	16130260	T-C	Hetero	INTERGENIC
SBS	Chr5	17564174	C-A	Hetero	INTERGENIC
SBS	Chr6	6053878	T-C	Hetero	INTERGENIC
SBS	Chr7	10043654	G-A	Homo	INTERGENIC
SBS	Chr7	10043655	G-C	Homo	INTERGENIC
SBS	Chr7	10135762	T-A	Homo	INTERGENIC
SBS	Chr7	22054631	C-T	Hetero	INTERGENIC
SBS	Chr7	23746986	A-T	Hetero	INTERGENIC
SBS	Chr7	25671242	C-T	Hetero	INTERGENIC
SBS	Chr8	813791	G-A	Hetero	INTERGENIC
SBS	Chr8	25459327	C-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake08g200050
SBS	Chr9	1431554	G-T	Hetero	INTERGENIC
SBS	Chr9	2226064	G-T	Hetero	INTERGENIC
SBS	Chr9	2364475	G-T	Hetero	INTERGENIC
SBS	Chr9	2364476	C-T	Hetero	INTERGENIC
SBS	Chr9	11918976	G-C	Hetero	INTRON
SBS	Chr10	9649379	G-A	Hetero	INTERGENIC
SBS	Chr10	18025062	T-A	Hetero	INTERGENIC
SBS	Chr10	20163587	A-T	Hetero	START_GAINED
SBS	Chr11	8844862	G-T	Hetero	INTERGENIC
SBS	Chr11	24308932	C-T	Hetero	INTERGENIC
SBS	Chr12	4313671	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr8	3280416	3280417	1
Deletion	Chr11	5831927	5832153	226
Deletion	Chr8	9041001	9129000	87999	5
Deletion	Chr10	9983862	9983863	1
Deletion	Chr4	11653961	11653965	4
Deletion	Chr5	12312001	12393000	80999	3
Deletion	Chr5	12404001	12423000	18999
Deletion	Chr5	12428001	12456000	27999	OsKitaake05g098001
Deletion	Chr2	13351670	13351672	2
Deletion	Chr9	15021505	15021508	3
Deletion	Chr10	16218492	16218501	9
Deletion	Chr9	19851001	19872000	20999	5
Deletion	Chr4	19988469	19988470	1
Deletion	Chr12	20616723	20616724	1
Deletion	Chr1	22882770	22882772	2
Deletion	Chr1	26737928	26737933	5
Deletion	Chr1	32662630	32662642	12
Deletion	Chr2	35296017	35296024	7

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr8	20598949	Chr1	18039017
Translocation	Chr8	20598999	Chr1	18037634

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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

Chromosome

Position 2

Number of Genes