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Mutant Information

Mutant Name	FN2142-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2142-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: 40

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 12214494 G-C Hetero INTERGENIC
SBS Chr1 21279037 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake01g207700
SBS Chr1 24738326 T-C Hetero INTERGENIC
SBS Chr1 33538879 T-A Hetero INTERGENIC
SBS Chr2 19911317 C-T Hetero INTERGENIC
SBS Chr2 21750741 G-A Hetero INTERGENIC
SBS Chr2 31944009 T-C Hetero INTERGENIC
SBS Chr3 10631606 C-T Homo INTERGENIC
SBS Chr3 17230396 A-G Hetero INTERGENIC
SBS Chr3 18255362 G-T Hetero INTERGENIC
SBS Chr4 1317486 C-A Hetero INTERGENIC
SBS Chr4 3600829 T-C Hetero INTERGENIC
SBS Chr4 4610005 T-A Homo INTERGENIC
SBS Chr4 8457866 T-C Hetero INTERGENIC
SBS Chr4 21916114 C-A Homo INTERGENIC
SBS Chr4 22872118 A-G Hetero INTERGENIC
SBS Chr6 6702128 C-G Hetero NON_SYNONYMOUS_CODING OsKitaake06g087500
SBS Chr6 21600058 C-T Hetero INTERGENIC
SBS Chr6 27314703 A-C Homo INTERGENIC
SBS Chr7 20151009 G-A Hetero INTERGENIC
SBS Chr7 20881108 T-A Hetero INTERGENIC
SBS Chr7 24441438 C-T Hetero INTERGENIC
SBS Chr7 27961080 T-C Homo INTERGENIC
SBS Chr8 19629100 G-A Homo UTR_5_PRIME
SBS Chr8 19629102 G-T Homo UTR_5_PRIME
SBS Chr8 19629103 G-T Homo UTR_5_PRIME
SBS Chr9 4108299 C-T Hetero INTERGENIC
SBS Chr9 10476221 T-C Hetero INTERGENIC
SBS Chr9 13625586 A-G Hetero INTERGENIC
SBS Chr9 15509039 A-T Hetero INTERGENIC
SBS Chr10 3411363 A-C Homo INTERGENIC
SBS Chr10 3411367 T-A Homo INTERGENIC
SBS Chr10 11952464 C-T Hetero INTERGENIC
SBS Chr10 12981067 T-G Hetero INTERGENIC
SBS Chr10 16139374 T-C Hetero INTERGENIC
SBS Chr10 23733870 G-T Homo INTERGENIC
SBS Chr11 15522433 T-A Hetero INTERGENIC
SBS Chr11 17858902 C-G Hetero INTERGENIC
SBS Chr11 25325885 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake11g203300
SBS Chr12 3843135 C-T Homo INTERGENIC

Deletions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 661769 661787 18
Deletion Chr8 6706990 6706995 5
Deletion Chr7 9280653 9280654 1
Deletion Chr9 10678352 10678353 1
Deletion Chr1 15117792 15117796 4
Deletion Chr11 20099050 20099052 2
Deletion Chr8 21333512 21333514 2
Deletion Chr12 21826641 21826722 81
Deletion Chr4 22848079 22848093 14
Deletion Chr6 25146865 25146867 2
Deletion Chr6 26820864 26820866 2

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 23867723 23867726 2
Insertion Chr1 23885648 23885650 1
Insertion Chr2 5404899 5404904 4
Insertion Chr9 1962328 1962330 1

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr3 2557974 Chr2 27871221 2
Translocation Chr3 2557986 Chr2 27870561 OsKitaake03g036200
Translocation Chr11 12789250 Chr3 6325312 OsKitaake03g090200
Translocation Chr11 12789593 Chr3 6322411
Translocation Chr10 16165782 Chr7 22028005
Translocation Chr10 16165984 Chr7 22027999

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12214494	G-C	Hetero	INTERGENIC
SBS	Chr1	21279037	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g207700
SBS	Chr1	24738326	T-C	Hetero	INTERGENIC
SBS	Chr1	33538879	T-A	Hetero	INTERGENIC
SBS	Chr2	19911317	C-T	Hetero	INTERGENIC
SBS	Chr2	21750741	G-A	Hetero	INTERGENIC
SBS	Chr2	31944009	T-C	Hetero	INTERGENIC
SBS	Chr3	10631606	C-T	Homo	INTERGENIC
SBS	Chr3	17230396	A-G	Hetero	INTERGENIC
SBS	Chr3	18255362	G-T	Hetero	INTERGENIC
SBS	Chr4	1317486	C-A	Hetero	INTERGENIC
SBS	Chr4	3600829	T-C	Hetero	INTERGENIC
SBS	Chr4	4610005	T-A	Homo	INTERGENIC
SBS	Chr4	8457866	T-C	Hetero	INTERGENIC
SBS	Chr4	21916114	C-A	Homo	INTERGENIC
SBS	Chr4	22872118	A-G	Hetero	INTERGENIC
SBS	Chr6	6702128	C-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g087500
SBS	Chr6	21600058	C-T	Hetero	INTERGENIC
SBS	Chr6	27314703	A-C	Homo	INTERGENIC
SBS	Chr7	20151009	G-A	Hetero	INTERGENIC
SBS	Chr7	20881108	T-A	Hetero	INTERGENIC
SBS	Chr7	24441438	C-T	Hetero	INTERGENIC
SBS	Chr7	27961080	T-C	Homo	INTERGENIC
SBS	Chr8	19629100	G-A	Homo	UTR_5_PRIME
SBS	Chr8	19629102	G-T	Homo	UTR_5_PRIME
SBS	Chr8	19629103	G-T	Homo	UTR_5_PRIME
SBS	Chr9	4108299	C-T	Hetero	INTERGENIC
SBS	Chr9	10476221	T-C	Hetero	INTERGENIC
SBS	Chr9	13625586	A-G	Hetero	INTERGENIC
SBS	Chr9	15509039	A-T	Hetero	INTERGENIC
SBS	Chr10	3411363	A-C	Homo	INTERGENIC
SBS	Chr10	3411367	T-A	Homo	INTERGENIC
SBS	Chr10	11952464	C-T	Hetero	INTERGENIC
SBS	Chr10	12981067	T-G	Hetero	INTERGENIC
SBS	Chr10	16139374	T-C	Hetero	INTERGENIC
SBS	Chr10	23733870	G-T	Homo	INTERGENIC
SBS	Chr11	15522433	T-A	Hetero	INTERGENIC
SBS	Chr11	17858902	C-G	Hetero	INTERGENIC
SBS	Chr11	25325885	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g203300
SBS	Chr12	3843135	C-T	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	661769	661787	18
Deletion	Chr8	6706990	6706995	5
Deletion	Chr7	9280653	9280654	1
Deletion	Chr9	10678352	10678353	1
Deletion	Chr1	15117792	15117796	4
Deletion	Chr11	20099050	20099052	2
Deletion	Chr8	21333512	21333514	2
Deletion	Chr12	21826641	21826722	81
Deletion	Chr4	22848079	22848093	14
Deletion	Chr6	25146865	25146867	2
Deletion	Chr6	26820864	26820866	2

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr3	2557974	Chr2	27871221	2
Translocation	Chr3	2557986	Chr2	27870561	OsKitaake03g036200
Translocation	Chr11	12789250	Chr3	6325312	OsKitaake03g090200
Translocation	Chr11	12789593	Chr3	6322411
Translocation	Chr10	16165782	Chr7	22028005
Translocation	Chr10	16165984	Chr7	22027999

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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