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Mutant Information

Mutant Name	FN-177 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN-177 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Very Low (below 24% compare to WT) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Low (Between 25% and 74%) TO:0000639 (Seed fertility) = Very Low (Below 24%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 25

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1872867 A-G Hetero INTRON
SBS Chr1 6960344 G-T Hetero INTERGENIC
SBS Chr2 16594200 T-C Hetero INTERGENIC
SBS Chr2 19573775 G-T Hetero INTERGENIC
SBS Chr3 12976265 A-T Hetero INTERGENIC
SBS Chr3 22060513 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake03g241258
SBS Chr3 28746860 C-G Hetero INTRON
SBS Chr4 20260 A-T Hetero INTERGENIC
SBS Chr4 28877448 G-A Homo INTERGENIC
SBS Chr4 33966296 G-A Hetero INTERGENIC
SBS Chr5 203945 A-G Hetero INTRON
SBS Chr5 12943062 T-G Hetero INTERGENIC
SBS Chr6 8746415 A-T Hetero INTERGENIC
SBS Chr6 28739425 A-G Hetero UTR_5_PRIME
SBS Chr7 26917424 A-T Homo INTRON
SBS Chr8 843254 C-A Homo INTERGENIC
SBS Chr8 2715037 G-C Hetero INTERGENIC
SBS Chr8 10068227 C-T Hetero INTERGENIC
SBS Chr10 20064253 C-A Homo INTERGENIC
SBS Chr10 20069264 A-G Homo INTERGENIC
SBS Chr10 21759857 C-T Hetero INTERGENIC
SBS Chr11 13060030 G-A Hetero INTERGENIC
SBS Chr11 27845188 C-T Homo INTERGENIC
SBS Chr12 20439073 T-A Homo INTERGENIC
SBS Chr12 26663232 A-G Hetero INTERGENIC

Deletions: 18

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 393620 393623 3
Deletion Chr8 1915698 1915719 21
Deletion Chr2 2889982 2889983 1
Deletion Chr5 3953319 3953334 15
Deletion Chr12 4527550 4527552 2
Deletion Chr7 7054299 7054301 2
Deletion Chr8 9194445 9194455 10
Deletion Chr3 10191562 10191567 5
Deletion Chr6 13774291 13774292 1
Deletion Chr2 15798190 15798191 1
Deletion Chr3 17043203 17043222 19
Deletion Chr12 18330001 18448000 117999 4
Deletion Chr8 21120480 21120481 1
Deletion Chr9 21814983 21814985 2
Deletion Chr11 23233109 23233118 9
Deletion Chr7 26048590 26048598 8
Deletion Chr7 29521617 29521624 7 OsKitaake07g284500
Deletion Chr1 36200647 36200648 1

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 11414996 11415001 4
Insertion Chr4 10982443 10982445 1
Insertion Chr8 12921786 12921788 1

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr5 2208701 Chr4 22423272 OsKitaake04g131600
Translocation Chr5 2208913 Chr4 22423267 OsKitaake04g131600

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1872867	A-G	Hetero	INTRON
SBS	Chr1	6960344	G-T	Hetero	INTERGENIC
SBS	Chr2	16594200	T-C	Hetero	INTERGENIC
SBS	Chr2	19573775	G-T	Hetero	INTERGENIC
SBS	Chr3	12976265	A-T	Hetero	INTERGENIC
SBS	Chr3	22060513	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g241258
SBS	Chr3	28746860	C-G	Hetero	INTRON
SBS	Chr4	20260	A-T	Hetero	INTERGENIC
SBS	Chr4	28877448	G-A	Homo	INTERGENIC
SBS	Chr4	33966296	G-A	Hetero	INTERGENIC
SBS	Chr5	203945	A-G	Hetero	INTRON
SBS	Chr5	12943062	T-G	Hetero	INTERGENIC
SBS	Chr6	8746415	A-T	Hetero	INTERGENIC
SBS	Chr6	28739425	A-G	Hetero	UTR_5_PRIME
SBS	Chr7	26917424	A-T	Homo	INTRON
SBS	Chr8	843254	C-A	Homo	INTERGENIC
SBS	Chr8	2715037	G-C	Hetero	INTERGENIC
SBS	Chr8	10068227	C-T	Hetero	INTERGENIC
SBS	Chr10	20064253	C-A	Homo	INTERGENIC
SBS	Chr10	20069264	A-G	Homo	INTERGENIC
SBS	Chr10	21759857	C-T	Hetero	INTERGENIC
SBS	Chr11	13060030	G-A	Hetero	INTERGENIC
SBS	Chr11	27845188	C-T	Homo	INTERGENIC
SBS	Chr12	20439073	T-A	Homo	INTERGENIC
SBS	Chr12	26663232	A-G	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	393620	393623	3
Deletion	Chr8	1915698	1915719	21
Deletion	Chr2	2889982	2889983	1
Deletion	Chr5	3953319	3953334	15
Deletion	Chr12	4527550	4527552	2
Deletion	Chr7	7054299	7054301	2
Deletion	Chr8	9194445	9194455	10
Deletion	Chr3	10191562	10191567	5
Deletion	Chr6	13774291	13774292	1
Deletion	Chr2	15798190	15798191	1
Deletion	Chr3	17043203	17043222	19
Deletion	Chr12	18330001	18448000	117999	4
Deletion	Chr8	21120480	21120481	1
Deletion	Chr9	21814983	21814985	2
Deletion	Chr11	23233109	23233118	9
Deletion	Chr7	26048590	26048598	8
Deletion	Chr7	29521617	29521624	7	OsKitaake07g284500
Deletion	Chr1	36200647	36200648	1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	2208701	Chr4	22423272	OsKitaake04g131600
Translocation	Chr5	2208913	Chr4	22423267	OsKitaake04g131600

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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