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Mutant Information

Mutant Name	FN2539-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2539-S Alignment File
Seed Availability	Yes [Order Seeds]

Variant Information

Single base substitutions: 40

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 12538342 A-C Hetero INTERGENIC
SBS Chr1 12612570 C-T Homo INTERGENIC
SBS Chr2 4399970 C-T Hetero INTERGENIC
SBS Chr2 10020235 A-G Hetero INTRON
SBS Chr2 10765572 C-T Hetero INTERGENIC
SBS Chr2 15069355 T-A Hetero INTRON
SBS Chr2 18825795 C-A Hetero INTERGENIC
SBS Chr2 29131375 G-A Homo INTERGENIC
SBS Chr3 3904983 A-T Homo UTR_3_PRIME
SBS Chr3 30702727 C-A Hetero INTRON
SBS Chr4 4622972 T-A Homo INTERGENIC
SBS Chr4 14461923 G-A Homo INTERGENIC
SBS Chr4 21467449 C-T Hetero INTERGENIC
SBS Chr4 26143598 T-G Hetero INTERGENIC
SBS Chr4 29913575 G-A Hetero INTERGENIC
SBS Chr4 29913576 G-A Hetero INTERGENIC
SBS Chr5 3555703 G-A Homo INTERGENIC
SBS Chr5 5481698 C-T Hetero INTERGENIC
SBS Chr5 21746894 C-T Homo INTERGENIC
SBS Chr5 25649282 A-T Hetero INTRON
SBS Chr6 2648770 G-A Hetero INTERGENIC
SBS Chr7 1102709 A-C Homo INTERGENIC
SBS Chr8 1439827 T-C Hetero INTERGENIC
SBS Chr8 7444027 T-C Hetero INTERGENIC
SBS Chr8 7554296 T-C Hetero INTERGENIC
SBS Chr8 9283061 A-T Hetero INTRON
SBS Chr8 26326050 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake08g211100
SBS Chr9 11116238 G-T Hetero INTERGENIC
SBS Chr9 18883115 T-G Hetero UTR_3_PRIME
SBS Chr9 19163602 G-T Hetero INTERGENIC
SBS Chr10 7940953 C-A Hetero SYNONYMOUS_CODING
SBS Chr10 7940954 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake10g050200
SBS Chr10 12033861 T-A Homo INTERGENIC
SBS Chr10 22536774 A-G Hetero INTERGENIC
SBS Chr11 12503433 A-G Hetero INTERGENIC
SBS Chr11 20086743 G-A Hetero INTERGENIC
SBS Chr11 27592404 A-G Hetero INTERGENIC
SBS Chr11 29155245 C-G Hetero INTRON
SBS Chr12 17233552 C-G Hetero INTRON
SBS Chr12 20244393 G-A Hetero INTERGENIC

Deletions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 5505923 5505930 7
Deletion Chr3 11478351 11478357 6
Deletion Chr8 11749225 11749227 2
Deletion Chr5 14347176 14347183 7
Deletion Chr2 19091001 19100000 8999
Deletion Chr1 19804196 19804198 2
Deletion Chr3 36378375 36378379 4

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 5018536 5018539 2
Insertion Chr3 10179305 10179308 2
Insertion Chr6 29288704 29288707 2
Insertion Chr7 19757738 19757741 2
Insertion Chr7 21820916 21820919 2
Insertion Chr5 30012903 30012905 1

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 4331394 4422173 OsKitaake08g050200

Translocations: 3

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr6 1309708 Chr2 26084433
Translocation Chr5 2495062 Chr2 19100631
Translocation Chr5 12361004 Chr2 19102573

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12538342	A-C	Hetero	INTERGENIC
SBS	Chr1	12612570	C-T	Homo	INTERGENIC
SBS	Chr2	4399970	C-T	Hetero	INTERGENIC
SBS	Chr2	10020235	A-G	Hetero	INTRON
SBS	Chr2	10765572	C-T	Hetero	INTERGENIC
SBS	Chr2	15069355	T-A	Hetero	INTRON
SBS	Chr2	18825795	C-A	Hetero	INTERGENIC
SBS	Chr2	29131375	G-A	Homo	INTERGENIC
SBS	Chr3	3904983	A-T	Homo	UTR_3_PRIME
SBS	Chr3	30702727	C-A	Hetero	INTRON
SBS	Chr4	4622972	T-A	Homo	INTERGENIC
SBS	Chr4	14461923	G-A	Homo	INTERGENIC
SBS	Chr4	21467449	C-T	Hetero	INTERGENIC
SBS	Chr4	26143598	T-G	Hetero	INTERGENIC
SBS	Chr4	29913575	G-A	Hetero	INTERGENIC
SBS	Chr4	29913576	G-A	Hetero	INTERGENIC
SBS	Chr5	3555703	G-A	Homo	INTERGENIC
SBS	Chr5	5481698	C-T	Hetero	INTERGENIC
SBS	Chr5	21746894	C-T	Homo	INTERGENIC
SBS	Chr5	25649282	A-T	Hetero	INTRON
SBS	Chr6	2648770	G-A	Hetero	INTERGENIC
SBS	Chr7	1102709	A-C	Homo	INTERGENIC
SBS	Chr8	1439827	T-C	Hetero	INTERGENIC
SBS	Chr8	7444027	T-C	Hetero	INTERGENIC
SBS	Chr8	7554296	T-C	Hetero	INTERGENIC
SBS	Chr8	9283061	A-T	Hetero	INTRON
SBS	Chr8	26326050	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake08g211100
SBS	Chr9	11116238	G-T	Hetero	INTERGENIC
SBS	Chr9	18883115	T-G	Hetero	UTR_3_PRIME
SBS	Chr9	19163602	G-T	Hetero	INTERGENIC
SBS	Chr10	7940953	C-A	Hetero	SYNONYMOUS_CODING
SBS	Chr10	7940954	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake10g050200
SBS	Chr10	12033861	T-A	Homo	INTERGENIC
SBS	Chr10	22536774	A-G	Hetero	INTERGENIC
SBS	Chr11	12503433	A-G	Hetero	INTERGENIC
SBS	Chr11	20086743	G-A	Hetero	INTERGENIC
SBS	Chr11	27592404	A-G	Hetero	INTERGENIC
SBS	Chr11	29155245	C-G	Hetero	INTRON
SBS	Chr12	17233552	C-G	Hetero	INTRON
SBS	Chr12	20244393	G-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	5505923	5505930	7
Deletion	Chr3	11478351	11478357	6
Deletion	Chr8	11749225	11749227	2
Deletion	Chr5	14347176	14347183	7
Deletion	Chr2	19091001	19100000	8999
Deletion	Chr1	19804196	19804198	2
Deletion	Chr3	36378375	36378379	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	4331394	4422173	OsKitaake08g050200

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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