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Mutant Information

Mutant Name	FN2530-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2530-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: 67

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 10160773 C-T Homo INTERGENIC
SBS Chr1 14017233 T-A Hetero INTERGENIC
SBS Chr1 19834588 T-G Hetero INTRON
SBS Chr1 21723735 T-C Hetero INTRON
SBS Chr1 25407729 G-A Hetero INTERGENIC
SBS Chr1 29567835 G-A Hetero INTERGENIC
SBS Chr1 30288856 A-T Hetero INTERGENIC
SBS Chr1 32687381 C-T Hetero SPLICE_SITE_DONOR OsKitaake01g331900
SBS Chr1 32687384 C-G Hetero NON_SYNONYMOUS_CODING OsKitaake01g331900
SBS Chr1 33753684 C-A Hetero INTERGENIC
SBS Chr1 41445061 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake01g452600
SBS Chr1 44001301 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake01g490600
SBS Chr2 2703639 A-C Homo UTR_3_PRIME
SBS Chr2 5628611 T-C Homo INTERGENIC
SBS Chr2 14131589 C-A Hetero SYNONYMOUS_CODING
SBS Chr2 14222559 G-A Hetero INTERGENIC
SBS Chr2 28550658 G-A Hetero INTERGENIC
SBS Chr2 33647836 G-A Hetero INTERGENIC
SBS Chr3 2426597 C-A Hetero INTERGENIC
SBS Chr3 4235694 A-C Hetero INTERGENIC
SBS Chr3 8262504 C-T Hetero INTERGENIC
SBS Chr3 10037275 T-C Hetero INTERGENIC
SBS Chr3 15058740 G-T Hetero INTERGENIC
SBS Chr4 4819771 C-T Hetero INTERGENIC
SBS Chr4 6205579 T-C Hetero INTERGENIC
SBS Chr4 8728021 G-T Hetero INTERGENIC
SBS Chr4 11009216 C-T Hetero INTERGENIC
SBS Chr4 11587571 G-A Hetero INTERGENIC
SBS Chr4 19516247 C-T Hetero STOP_GAINED OsKitaake04g100500
SBS Chr4 20140149 C-T Hetero INTERGENIC
SBS Chr4 22867713 C-T Hetero INTERGENIC
SBS Chr4 25294398 G-A Hetero INTRON
SBS Chr4 35679247 T-A Hetero INTERGENIC
SBS Chr5 4236716 C-T Hetero INTERGENIC
SBS Chr5 4550537 G-A Hetero INTERGENIC
SBS Chr5 12376727 C-T Hetero INTERGENIC
SBS Chr5 15252334 A-T Hetero INTERGENIC
SBS Chr5 20941111 C-T Hetero INTERGENIC
SBS Chr5 23220478 T-C Hetero INTERGENIC
SBS Chr6 18920738 A-G Hetero INTERGENIC
SBS Chr7 777877 A-G Homo INTERGENIC
SBS Chr7 2240658 C-T Hetero INTERGENIC
SBS Chr7 2763173 G-C Hetero INTERGENIC
SBS Chr7 12090108 G-A Hetero INTERGENIC
SBS Chr7 13452275 G-A Hetero INTERGENIC
SBS Chr7 17803848 G-A Homo INTERGENIC
SBS Chr7 21146041 A-G Hetero INTERGENIC
SBS Chr7 23121020 C-A Hetero INTERGENIC
SBS Chr7 23121021 G-T Hetero INTERGENIC
SBS Chr8 11704276 C-A Hetero SYNONYMOUS_CODING
SBS Chr8 13844174 T-A Hetero INTERGENIC
SBS Chr8 17502496 T-G Hetero INTERGENIC
SBS Chr9 4312626 C-A Homo INTERGENIC
SBS Chr9 12470489 C-A Homo INTERGENIC
SBS Chr9 17354697 C-T Hetero INTERGENIC
SBS Chr10 1188089 T-C Hetero INTERGENIC
SBS Chr10 10882897 C-T Hetero INTERGENIC
SBS Chr10 17444048 G-A Homo INTERGENIC
SBS Chr11 2415438 A-T Hetero INTERGENIC
SBS Chr11 5429603 T-C Hetero INTERGENIC
SBS Chr11 13650216 C-A Hetero INTERGENIC
SBS Chr11 17492093 C-A Hetero INTERGENIC
SBS Chr11 25283754 A-C Hetero INTERGENIC
SBS Chr12 8044254 G-A Hetero INTERGENIC
SBS Chr12 8529300 A-G Hetero INTERGENIC
SBS Chr12 10378745 C-T Hetero INTRON
SBS Chr12 23342769 T-A Hetero UTR_3_PRIME

Deletions: 8

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr7 782392 782403 11
Deletion Chr7 896708 896712 4
Deletion Chr5 9024595 9024602 7
Deletion Chr12 9470311 9470316 5
Deletion Chr7 11683001 11792000 108999 4
Deletion Chr12 18441922 18441923 1
Deletion Chr6 22342509 22342512 3
Deletion Chr7 22411137 22411146 9

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr11 19655028 20649940

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10160773	C-T	Homo	INTERGENIC
SBS	Chr1	14017233	T-A	Hetero	INTERGENIC
SBS	Chr1	19834588	T-G	Hetero	INTRON
SBS	Chr1	21723735	T-C	Hetero	INTRON
SBS	Chr1	25407729	G-A	Hetero	INTERGENIC
SBS	Chr1	29567835	G-A	Hetero	INTERGENIC
SBS	Chr1	30288856	A-T	Hetero	INTERGENIC
SBS	Chr1	32687381	C-T	Hetero	SPLICE_SITE_DONOR	OsKitaake01g331900
SBS	Chr1	32687384	C-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g331900
SBS	Chr1	33753684	C-A	Hetero	INTERGENIC
SBS	Chr1	41445061	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g452600
SBS	Chr1	44001301	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g490600
SBS	Chr2	2703639	A-C	Homo	UTR_3_PRIME
SBS	Chr2	5628611	T-C	Homo	INTERGENIC
SBS	Chr2	14131589	C-A	Hetero	SYNONYMOUS_CODING
SBS	Chr2	14222559	G-A	Hetero	INTERGENIC
SBS	Chr2	28550658	G-A	Hetero	INTERGENIC
SBS	Chr2	33647836	G-A	Hetero	INTERGENIC
SBS	Chr3	2426597	C-A	Hetero	INTERGENIC
SBS	Chr3	4235694	A-C	Hetero	INTERGENIC
SBS	Chr3	8262504	C-T	Hetero	INTERGENIC
SBS	Chr3	10037275	T-C	Hetero	INTERGENIC
SBS	Chr3	15058740	G-T	Hetero	INTERGENIC
SBS	Chr4	4819771	C-T	Hetero	INTERGENIC
SBS	Chr4	6205579	T-C	Hetero	INTERGENIC
SBS	Chr4	8728021	G-T	Hetero	INTERGENIC
SBS	Chr4	11009216	C-T	Hetero	INTERGENIC
SBS	Chr4	11587571	G-A	Hetero	INTERGENIC
SBS	Chr4	19516247	C-T	Hetero	STOP_GAINED	OsKitaake04g100500
SBS	Chr4	20140149	C-T	Hetero	INTERGENIC
SBS	Chr4	22867713	C-T	Hetero	INTERGENIC
SBS	Chr4	25294398	G-A	Hetero	INTRON
SBS	Chr4	35679247	T-A	Hetero	INTERGENIC
SBS	Chr5	4236716	C-T	Hetero	INTERGENIC
SBS	Chr5	4550537	G-A	Hetero	INTERGENIC
SBS	Chr5	12376727	C-T	Hetero	INTERGENIC
SBS	Chr5	15252334	A-T	Hetero	INTERGENIC
SBS	Chr5	20941111	C-T	Hetero	INTERGENIC
SBS	Chr5	23220478	T-C	Hetero	INTERGENIC
SBS	Chr6	18920738	A-G	Hetero	INTERGENIC
SBS	Chr7	777877	A-G	Homo	INTERGENIC
SBS	Chr7	2240658	C-T	Hetero	INTERGENIC
SBS	Chr7	2763173	G-C	Hetero	INTERGENIC
SBS	Chr7	12090108	G-A	Hetero	INTERGENIC
SBS	Chr7	13452275	G-A	Hetero	INTERGENIC
SBS	Chr7	17803848	G-A	Homo	INTERGENIC
SBS	Chr7	21146041	A-G	Hetero	INTERGENIC
SBS	Chr7	23121020	C-A	Hetero	INTERGENIC
SBS	Chr7	23121021	G-T	Hetero	INTERGENIC
SBS	Chr8	11704276	C-A	Hetero	SYNONYMOUS_CODING
SBS	Chr8	13844174	T-A	Hetero	INTERGENIC
SBS	Chr8	17502496	T-G	Hetero	INTERGENIC
SBS	Chr9	4312626	C-A	Homo	INTERGENIC
SBS	Chr9	12470489	C-A	Homo	INTERGENIC
SBS	Chr9	17354697	C-T	Hetero	INTERGENIC
SBS	Chr10	1188089	T-C	Hetero	INTERGENIC
SBS	Chr10	10882897	C-T	Hetero	INTERGENIC
SBS	Chr10	17444048	G-A	Homo	INTERGENIC
SBS	Chr11	2415438	A-T	Hetero	INTERGENIC
SBS	Chr11	5429603	T-C	Hetero	INTERGENIC
SBS	Chr11	13650216	C-A	Hetero	INTERGENIC
SBS	Chr11	17492093	C-A	Hetero	INTERGENIC
SBS	Chr11	25283754	A-C	Hetero	INTERGENIC
SBS	Chr12	8044254	G-A	Hetero	INTERGENIC
SBS	Chr12	8529300	A-G	Hetero	INTERGENIC
SBS	Chr12	10378745	C-T	Hetero	INTRON
SBS	Chr12	23342769	T-A	Hetero	UTR_3_PRIME

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr7	782392	782403	11
Deletion	Chr7	896708	896712	4
Deletion	Chr5	9024595	9024602	7
Deletion	Chr12	9470311	9470316	5
Deletion	Chr7	11683001	11792000	108999	4
Deletion	Chr12	18441922	18441923	1
Deletion	Chr6	22342509	22342512	3
Deletion	Chr7	22411137	22411146	9

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	19655028	20649940

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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