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Mutant Information

Mutant Name	FN1316-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1316-S 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) = Low (Between 25% and 74%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 23

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 386434 C-T Hetero SYNONYMOUS_CODING
SBS Chr1 1434964 C-A Homo INTERGENIC
SBS Chr1 22082330 T-A Homo INTRON
SBS Chr1 22082331 C-A Homo INTRON
SBS Chr2 10200720 A-C Hetero INTERGENIC
SBS Chr2 24026953 C-T Homo INTRON
SBS Chr3 4901424 T-C Homo INTERGENIC
SBS Chr3 31170231 G-T Hetero INTERGENIC
SBS Chr3 33644885 C-T Homo INTERGENIC
SBS Chr4 15653274 G-C Homo INTRON
SBS Chr4 15653275 C-A Homo INTRON
SBS Chr4 17394595 T-C Homo INTERGENIC
SBS Chr5 29602722 A-T Homo INTERGENIC
SBS Chr6 3680469 A-T Hetero INTERGENIC
SBS Chr6 22421168 C-T Hetero INTERGENIC
SBS Chr6 23114948 T-A Homo INTERGENIC
SBS Chr6 23114949 C-A Homo INTERGENIC
SBS Chr7 10045719 T-G Homo INTERGENIC
SBS Chr8 2276161 A-T Hetero INTERGENIC
SBS Chr10 19712447 C-T Homo NON_SYNONYMOUS_CODING OsKitaake10g146000
SBS Chr11 15303001 T-C Hetero INTERGENIC
SBS Chr12 1981510 C-T Homo INTERGENIC
SBS Chr12 20555155 G-A Homo INTERGENIC

Deletions: 9

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 63633 63634 1
Deletion Chr7 6420801 6420807 6
Deletion Chr11 9738001 9759000 20999 5
Deletion Chr11 10427169 10427178 9
Deletion Chr1 13956728 13956729 1
Deletion Chr2 18334923 18334932 9
Deletion Chr1 19721043 19721044 1 OsKitaake01g196200
Deletion Chr6 23507529 23507530 1
Deletion Chr1 28326001 28397000 70999 5

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 8969340 8969343 2
Insertion Chr2 36401191 36401194 2
Insertion Chr10 16315795 16315798 2
Insertion Chr11 28197633 28197636 2
Insertion Chr12 16765721 16765724 2
Insertion Chr7 11984659 11984661 1

Inversions: 3

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 5093256 5350743 OsKitaake04g024100
Inversion Chr3 9672724 9673084 OsKitaake03g131600
Inversion Chr2 17857585 18620135

Translocations: 7

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr4 4483561 Chr1 28391119 OsKitaake01g274900
Translocation Chr4 5755881 Chr1 28391104 OsKitaake01g274900
Translocation Chr9 10748325 Chr1 10888583 OsKitaake09g066700
Translocation Chr9 10774235 Chr1 10888577
Translocation Chr2 13191041 Chr1 28330911
Translocation Chr2 13191195 Chr1 28392237 OsKitaake01g274900
Translocation Chr7 26498716 Chr1 24792874 OsKitaake07g244800

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	386434	C-T	Hetero	SYNONYMOUS_CODING
SBS	Chr1	1434964	C-A	Homo	INTERGENIC
SBS	Chr1	22082330	T-A	Homo	INTRON
SBS	Chr1	22082331	C-A	Homo	INTRON
SBS	Chr2	10200720	A-C	Hetero	INTERGENIC
SBS	Chr2	24026953	C-T	Homo	INTRON
SBS	Chr3	4901424	T-C	Homo	INTERGENIC
SBS	Chr3	31170231	G-T	Hetero	INTERGENIC
SBS	Chr3	33644885	C-T	Homo	INTERGENIC
SBS	Chr4	15653274	G-C	Homo	INTRON
SBS	Chr4	15653275	C-A	Homo	INTRON
SBS	Chr4	17394595	T-C	Homo	INTERGENIC
SBS	Chr5	29602722	A-T	Homo	INTERGENIC
SBS	Chr6	3680469	A-T	Hetero	INTERGENIC
SBS	Chr6	22421168	C-T	Hetero	INTERGENIC
SBS	Chr6	23114948	T-A	Homo	INTERGENIC
SBS	Chr6	23114949	C-A	Homo	INTERGENIC
SBS	Chr7	10045719	T-G	Homo	INTERGENIC
SBS	Chr8	2276161	A-T	Hetero	INTERGENIC
SBS	Chr10	19712447	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake10g146000
SBS	Chr11	15303001	T-C	Hetero	INTERGENIC
SBS	Chr12	1981510	C-T	Homo	INTERGENIC
SBS	Chr12	20555155	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	63633	63634	1
Deletion	Chr7	6420801	6420807	6
Deletion	Chr11	9738001	9759000	20999	5
Deletion	Chr11	10427169	10427178	9
Deletion	Chr1	13956728	13956729	1
Deletion	Chr2	18334923	18334932	9
Deletion	Chr1	19721043	19721044	1	OsKitaake01g196200
Deletion	Chr6	23507529	23507530	1
Deletion	Chr1	28326001	28397000	70999	5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	5093256	5350743	OsKitaake04g024100
Inversion	Chr3	9672724	9673084	OsKitaake03g131600
Inversion	Chr2	17857585	18620135

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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