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Mutant Information

Mutant Name	FN2123-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2123-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: 35

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 11092676 A-G Hetero INTERGENIC
SBS Chr1 18803212 G-A Hetero INTRON
SBS Chr1 37010671 A-T Homo INTERGENIC
SBS Chr1 42309307 G-C Hetero INTRON
SBS Chr2 3114692 T-C Homo INTRON
SBS Chr2 8900904 T-A Hetero INTERGENIC
SBS Chr4 1417411 T-C Hetero INTERGENIC
SBS Chr4 23026885 G-A Hetero INTERGENIC
SBS Chr4 25027810 G-A Homo INTERGENIC
SBS Chr4 25574616 G-A Hetero UTR_3_PRIME
SBS Chr5 4754795 C-A Hetero INTERGENIC
SBS Chr6 5573902 G-T Homo INTERGENIC
SBS Chr6 10360608 A-G Hetero INTERGENIC
SBS Chr6 25564276 C-T Hetero INTERGENIC
SBS Chr6 25564706 G-T Hetero INTERGENIC
SBS Chr6 26164867 T-A Hetero INTRON
SBS Chr6 28963278 C-A Hetero SYNONYMOUS_CODING
SBS Chr7 29048877 C-G Hetero INTERGENIC
SBS Chr8 7734433 G-A Homo INTERGENIC
SBS Chr8 15686691 A-G Hetero INTERGENIC
SBS Chr8 20262513 C-T Hetero UTR_5_PRIME
SBS Chr8 29167711 A-G Hetero INTRON
SBS Chr8 29167721 T-A Hetero INTRON
SBS Chr8 29167722 G-A Hetero INTRON
SBS Chr9 11710687 C-T Hetero INTERGENIC
SBS Chr9 22222658 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake09g200600
SBS Chr10 8972253 G-A Hetero INTERGENIC
SBS Chr10 9307964 C-T Hetero INTERGENIC
SBS Chr11 822018 G-A Homo INTERGENIC
SBS Chr11 2656253 A-T Hetero INTERGENIC
SBS Chr11 3722615 G-A Hetero INTERGENIC
SBS Chr11 14986481 G-A Hetero INTERGENIC
SBS Chr11 23514217 G-A Homo INTERGENIC
SBS Chr12 17973887 T-A Homo INTERGENIC
SBS Chr12 26947679 A-G Hetero INTERGENIC

Deletions: 17

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 708475 708476 1
Deletion Chr11 4296993 4296998 5
Deletion Chr11 5932626 5932641 15
Deletion Chr12 9403693 9403705 12
Deletion Chr8 14601714 14601716 2
Deletion Chr7 15959999 15960003 4
Deletion Chr3 17810554 17810555 1
Deletion Chr12 24371743 24371744 1 OsKitaake12g196100
Deletion Chr11 25836147 25836150 3
Deletion Chr6 25924915 25924918 3
Deletion Chr4 26434037 26434038 1 OsKitaake04g189400
Deletion Chr7 27254024 27254030 6
Deletion Chr4 27458630 27458635 5
Deletion Chr2 29321427 29321428 1
Deletion Chr1 33816715 33816716 1 OsKitaake01g347500
Deletion Chr1 34536677 34536678 1 OsKitaake01g361900
Deletion Chr1 37032820 37032821 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr12 841310 1244052 OsKitaake12g012000
Inversion Chr12 841311 1244058 OsKitaake12g012000

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	11092676	A-G	Hetero	INTERGENIC
SBS	Chr1	18803212	G-A	Hetero	INTRON
SBS	Chr1	37010671	A-T	Homo	INTERGENIC
SBS	Chr1	42309307	G-C	Hetero	INTRON
SBS	Chr2	3114692	T-C	Homo	INTRON
SBS	Chr2	8900904	T-A	Hetero	INTERGENIC
SBS	Chr4	1417411	T-C	Hetero	INTERGENIC
SBS	Chr4	23026885	G-A	Hetero	INTERGENIC
SBS	Chr4	25027810	G-A	Homo	INTERGENIC
SBS	Chr4	25574616	G-A	Hetero	UTR_3_PRIME
SBS	Chr5	4754795	C-A	Hetero	INTERGENIC
SBS	Chr6	5573902	G-T	Homo	INTERGENIC
SBS	Chr6	10360608	A-G	Hetero	INTERGENIC
SBS	Chr6	25564276	C-T	Hetero	INTERGENIC
SBS	Chr6	25564706	G-T	Hetero	INTERGENIC
SBS	Chr6	26164867	T-A	Hetero	INTRON
SBS	Chr6	28963278	C-A	Hetero	SYNONYMOUS_CODING
SBS	Chr7	29048877	C-G	Hetero	INTERGENIC
SBS	Chr8	7734433	G-A	Homo	INTERGENIC
SBS	Chr8	15686691	A-G	Hetero	INTERGENIC
SBS	Chr8	20262513	C-T	Hetero	UTR_5_PRIME
SBS	Chr8	29167711	A-G	Hetero	INTRON
SBS	Chr8	29167721	T-A	Hetero	INTRON
SBS	Chr8	29167722	G-A	Hetero	INTRON
SBS	Chr9	11710687	C-T	Hetero	INTERGENIC
SBS	Chr9	22222658	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake09g200600
SBS	Chr10	8972253	G-A	Hetero	INTERGENIC
SBS	Chr10	9307964	C-T	Hetero	INTERGENIC
SBS	Chr11	822018	G-A	Homo	INTERGENIC
SBS	Chr11	2656253	A-T	Hetero	INTERGENIC
SBS	Chr11	3722615	G-A	Hetero	INTERGENIC
SBS	Chr11	14986481	G-A	Hetero	INTERGENIC
SBS	Chr11	23514217	G-A	Homo	INTERGENIC
SBS	Chr12	17973887	T-A	Homo	INTERGENIC
SBS	Chr12	26947679	A-G	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	708475	708476	1
Deletion	Chr11	4296993	4296998	5
Deletion	Chr11	5932626	5932641	15
Deletion	Chr12	9403693	9403705	12
Deletion	Chr8	14601714	14601716	2
Deletion	Chr7	15959999	15960003	4
Deletion	Chr3	17810554	17810555	1
Deletion	Chr12	24371743	24371744	1	OsKitaake12g196100
Deletion	Chr11	25836147	25836150	3
Deletion	Chr6	25924915	25924918	3
Deletion	Chr4	26434037	26434038	1	OsKitaake04g189400
Deletion	Chr7	27254024	27254030	6
Deletion	Chr4	27458630	27458635	5
Deletion	Chr2	29321427	29321428	1
Deletion	Chr1	33816715	33816716	1	OsKitaake01g347500
Deletion	Chr1	34536677	34536678	1	OsKitaake01g361900
Deletion	Chr1	37032820	37032821	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	841310	1244052	OsKitaake12g012000
Inversion	Chr12	841311	1244058	OsKitaake12g012000

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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

Position 1

Position 2

Number of Genes