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Mutant Information

Mutant Name	FN-13 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-13 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000639 (Seed fertility) = Low (Between 25% and 74%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 26

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 35309084 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake01g372400
SBS Chr2 19911317 C-T Hetero INTERGENIC
SBS Chr3 4341807 T-C Homo INTERGENIC
SBS Chr3 33463489 C-T Homo NON_SYNONYMOUS_CODING OsKitaake03g358300
SBS Chr3 33463490 C-T Homo SYNONYMOUS_CODING
SBS Chr4 1427440 C-T Homo INTERGENIC
SBS Chr5 26815295 G-A Homo INTERGENIC
SBS Chr5 27268405 C-G Homo INTERGENIC
SBS Chr5 28405239 C-T Hetero INTERGENIC
SBS Chr5 28515092 C-A Hetero UTR_3_PRIME
SBS Chr6 8093498 T-C Hetero INTERGENIC
SBS Chr6 27307895 T-C Homo INTERGENIC
SBS Chr7 6767958 G-A Hetero INTERGENIC
SBS Chr7 7430066 A-G Hetero INTERGENIC
SBS Chr7 7498612 A-G Hetero INTRON
SBS Chr7 26718303 G-A Homo INTERGENIC
SBS Chr8 698027 C-T Hetero INTERGENIC
SBS Chr8 10961747 C-T Hetero INTERGENIC
SBS Chr9 2208483 A-G Hetero INTERGENIC
SBS Chr9 3433663 A-T Hetero INTERGENIC
SBS Chr9 3433667 C-A Hetero INTERGENIC
SBS Chr10 23733870 G-T Homo INTERGENIC
SBS Chr11 16460455 G-A Homo INTRON
SBS Chr12 4322427 A-G Hetero INTERGENIC
SBS Chr12 7702132 A-G Hetero INTERGENIC
SBS Chr12 20948305 C-T Hetero INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 522548 522549 1
Deletion Chr6 1714718 1714720 2
Deletion Chr11 2362770 2362771 1
Deletion Chr10 3618492 3618493 1
Deletion Chr8 4939550 4939559 9
Deletion Chr11 7449308 7449310 2
Deletion Chr5 11650183 11650191 8
Deletion Chr4 12779724 12779728 4
Deletion Chr3 18897752 18897754 2 OsKitaake03g227200
Deletion Chr8 19368470 19368472 2
Deletion Chr1 19703018 19703019 1
Deletion Chr2 27110001 27141000 30999 9
Deletion Chr2 30307699 30307717 18
Deletion Chr2 31218464 31218465 1
Deletion Chr4 36490700 36490708 8

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 21140482 21140485 2
Insertion Chr11 17860728 17860731 2
Insertion Chr4 16857457 16857459 1
Insertion Chr5 30226856 30226864 7

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr11 22425848 22545072 OsKitaake11g177900
Inversion Chr11 22425863 22545073 OsKitaake11g177900
Inversion Chr2 26801027 27112642 2
Inversion Chr2 26801042 27139030 OsKitaake02g267700

Translocations: 3

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 13515098 Chr8 18696461
Translocation Chr11 20314388 Chr7 4919000 OsKitaake07g060200
Translocation Chr11 20314390 Chr7 4919008 OsKitaake07g060200

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	35309084	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g372400
SBS	Chr2	19911317	C-T	Hetero	INTERGENIC
SBS	Chr3	4341807	T-C	Homo	INTERGENIC
SBS	Chr3	33463489	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake03g358300
SBS	Chr3	33463490	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr4	1427440	C-T	Homo	INTERGENIC
SBS	Chr5	26815295	G-A	Homo	INTERGENIC
SBS	Chr5	27268405	C-G	Homo	INTERGENIC
SBS	Chr5	28405239	C-T	Hetero	INTERGENIC
SBS	Chr5	28515092	C-A	Hetero	UTR_3_PRIME
SBS	Chr6	8093498	T-C	Hetero	INTERGENIC
SBS	Chr6	27307895	T-C	Homo	INTERGENIC
SBS	Chr7	6767958	G-A	Hetero	INTERGENIC
SBS	Chr7	7430066	A-G	Hetero	INTERGENIC
SBS	Chr7	7498612	A-G	Hetero	INTRON
SBS	Chr7	26718303	G-A	Homo	INTERGENIC
SBS	Chr8	698027	C-T	Hetero	INTERGENIC
SBS	Chr8	10961747	C-T	Hetero	INTERGENIC
SBS	Chr9	2208483	A-G	Hetero	INTERGENIC
SBS	Chr9	3433663	A-T	Hetero	INTERGENIC
SBS	Chr9	3433667	C-A	Hetero	INTERGENIC
SBS	Chr10	23733870	G-T	Homo	INTERGENIC
SBS	Chr11	16460455	G-A	Homo	INTRON
SBS	Chr12	4322427	A-G	Hetero	INTERGENIC
SBS	Chr12	7702132	A-G	Hetero	INTERGENIC
SBS	Chr12	20948305	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	522548	522549	1
Deletion	Chr6	1714718	1714720	2
Deletion	Chr11	2362770	2362771	1
Deletion	Chr10	3618492	3618493	1
Deletion	Chr8	4939550	4939559	9
Deletion	Chr11	7449308	7449310	2
Deletion	Chr5	11650183	11650191	8
Deletion	Chr4	12779724	12779728	4
Deletion	Chr3	18897752	18897754	2	OsKitaake03g227200
Deletion	Chr8	19368470	19368472	2
Deletion	Chr1	19703018	19703019	1
Deletion	Chr2	27110001	27141000	30999	9
Deletion	Chr2	30307699	30307717	18
Deletion	Chr2	31218464	31218465	1
Deletion	Chr4	36490700	36490708	8

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	22425848	22545072	OsKitaake11g177900
Inversion	Chr11	22425863	22545073	OsKitaake11g177900
Inversion	Chr2	26801027	27112642	2
Inversion	Chr2	26801042	27139030	OsKitaake02g267700

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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