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Mutant Information

Mutant Name	FN1512-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1512-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000137 (Days to heading) = Normal (Between 75% and 125%) TO:0000346 (Tiller number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 43

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 3012242 C-A Hetero INTERGENIC
SBS Chr1 4049970 G-A Hetero SYNONYMOUS_CODING
SBS Chr1 4057054 C-T Hetero INTERGENIC
SBS Chr1 10318884 A-G Hetero INTERGENIC
SBS Chr1 21171363 C-T Hetero INTERGENIC
SBS Chr1 28205342 C-G Homo INTERGENIC
SBS Chr1 33396065 A-G Homo INTERGENIC
SBS Chr2 9412137 C-T Hetero INTERGENIC
SBS Chr2 9641750 G-A Hetero INTERGENIC
SBS Chr2 24250923 A-T Homo UTR_3_PRIME
SBS Chr2 24905766 G-A Homo INTERGENIC
SBS Chr2 27852024 A-T Hetero INTERGENIC
SBS Chr2 35297100 A-T Hetero INTERGENIC
SBS Chr3 356749 C-T Homo INTRON
SBS Chr3 1070894 C-G Hetero INTERGENIC
SBS Chr4 13378902 A-G Hetero INTERGENIC
SBS Chr4 18288290 G-A Homo INTERGENIC
SBS Chr4 28068045 C-G Hetero UTR_5_PRIME
SBS Chr4 30528837 G-T Hetero INTERGENIC
SBS Chr4 30528855 C-T Hetero INTERGENIC
SBS Chr5 20074424 C-A Hetero INTERGENIC
SBS Chr5 20404696 C-G Homo INTERGENIC
SBS Chr6 9798395 C-G Homo INTERGENIC
SBS Chr6 10122332 G-A Hetero INTRON
SBS Chr6 16965949 T-A Homo INTRON
SBS Chr6 27532456 A-G Hetero INTRON
SBS Chr6 30142076 T-A Hetero INTRON
SBS Chr6 30992231 G-A Homo INTERGENIC
SBS Chr7 12085294 G-A Homo INTERGENIC
SBS Chr7 12942515 C-T Hetero INTERGENIC
SBS Chr7 21250949 T-C Hetero INTERGENIC
SBS Chr7 21269558 G-A Hetero INTRON
SBS Chr7 23359246 A-T Hetero INTERGENIC
SBS Chr8 13809613 C-T Homo INTERGENIC
SBS Chr8 18261015 T-C Homo INTERGENIC
SBS Chr8 28292772 T-A Hetero INTERGENIC
SBS Chr9 15913663 C-T Hetero INTERGENIC
SBS Chr11 10659307 T-G Hetero INTRON
SBS Chr11 10660635 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake11g105100
SBS Chr11 18855757 C-G Hetero INTERGENIC
SBS Chr11 24576788 C-T Hetero INTERGENIC
SBS Chr11 29683334 T-C Hetero INTRON
SBS Chr12 12337814 G-A Homo INTERGENIC

Deletions: 17

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 897797 897803 6
Deletion Chr3 3143398 3143577 179
Deletion Chr12 4499538 4499543 5
Deletion Chr10 10203767 10203877 110
Deletion Chr12 12596001 12613000 16999 5
Deletion Chr1 13313001 13492000 178999 8
Deletion Chr9 17379723 17379732 9
Deletion Chr10 18686981 18686983 2
Deletion Chr3 19139926 19139928 2
Deletion Chr10 20238469 20238474 5
Deletion Chr3 21656876 21656881 5
Deletion Chr12 26130530 26130532 2
Deletion Chr5 27154164 27154182 18
Deletion Chr4 27889153 27889156 3
Deletion Chr4 28765001 28889000 123999 16
Deletion Chr11 29556658 29556661 3
Deletion Chr4 36960644 36961078 434

Insertions: 7

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 20847101 20847104 2
Insertion Chr2 6424365 6424368 2
Insertion Chr3 24114556 24114559 2
Insertion Chr3 35349611 35349614 2
Insertion Chr5 22369061 22369065 3
Insertion Chr7 24634435 24634438 2
Insertion Chr10 19893726 19893728 1

Inversions: 7

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr3 1888038 1949229
Inversion Chr3 1888047 1950256
Inversion Chr1 13492390 14357628 2
Inversion Chr1 13878048 14357521 OsKitaake01g163800
Inversion Chr1 13878054 14806599
Inversion Chr7 20047771 20816849 OsKitaake07g164400
Inversion Chr7 20047779 20816857 OsKitaake07g164400

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3012242	C-A	Hetero	INTERGENIC
SBS	Chr1	4049970	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr1	4057054	C-T	Hetero	INTERGENIC
SBS	Chr1	10318884	A-G	Hetero	INTERGENIC
SBS	Chr1	21171363	C-T	Hetero	INTERGENIC
SBS	Chr1	28205342	C-G	Homo	INTERGENIC
SBS	Chr1	33396065	A-G	Homo	INTERGENIC
SBS	Chr2	9412137	C-T	Hetero	INTERGENIC
SBS	Chr2	9641750	G-A	Hetero	INTERGENIC
SBS	Chr2	24250923	A-T	Homo	UTR_3_PRIME
SBS	Chr2	24905766	G-A	Homo	INTERGENIC
SBS	Chr2	27852024	A-T	Hetero	INTERGENIC
SBS	Chr2	35297100	A-T	Hetero	INTERGENIC
SBS	Chr3	356749	C-T	Homo	INTRON
SBS	Chr3	1070894	C-G	Hetero	INTERGENIC
SBS	Chr4	13378902	A-G	Hetero	INTERGENIC
SBS	Chr4	18288290	G-A	Homo	INTERGENIC
SBS	Chr4	28068045	C-G	Hetero	UTR_5_PRIME
SBS	Chr4	30528837	G-T	Hetero	INTERGENIC
SBS	Chr4	30528855	C-T	Hetero	INTERGENIC
SBS	Chr5	20074424	C-A	Hetero	INTERGENIC
SBS	Chr5	20404696	C-G	Homo	INTERGENIC
SBS	Chr6	9798395	C-G	Homo	INTERGENIC
SBS	Chr6	10122332	G-A	Hetero	INTRON
SBS	Chr6	16965949	T-A	Homo	INTRON
SBS	Chr6	27532456	A-G	Hetero	INTRON
SBS	Chr6	30142076	T-A	Hetero	INTRON
SBS	Chr6	30992231	G-A	Homo	INTERGENIC
SBS	Chr7	12085294	G-A	Homo	INTERGENIC
SBS	Chr7	12942515	C-T	Hetero	INTERGENIC
SBS	Chr7	21250949	T-C	Hetero	INTERGENIC
SBS	Chr7	21269558	G-A	Hetero	INTRON
SBS	Chr7	23359246	A-T	Hetero	INTERGENIC
SBS	Chr8	13809613	C-T	Homo	INTERGENIC
SBS	Chr8	18261015	T-C	Homo	INTERGENIC
SBS	Chr8	28292772	T-A	Hetero	INTERGENIC
SBS	Chr9	15913663	C-T	Hetero	INTERGENIC
SBS	Chr11	10659307	T-G	Hetero	INTRON
SBS	Chr11	10660635	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g105100
SBS	Chr11	18855757	C-G	Hetero	INTERGENIC
SBS	Chr11	24576788	C-T	Hetero	INTERGENIC
SBS	Chr11	29683334	T-C	Hetero	INTRON
SBS	Chr12	12337814	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	897797	897803	6
Deletion	Chr3	3143398	3143577	179
Deletion	Chr12	4499538	4499543	5
Deletion	Chr10	10203767	10203877	110
Deletion	Chr12	12596001	12613000	16999	5
Deletion	Chr1	13313001	13492000	178999	8
Deletion	Chr9	17379723	17379732	9
Deletion	Chr10	18686981	18686983	2
Deletion	Chr3	19139926	19139928	2
Deletion	Chr10	20238469	20238474	5
Deletion	Chr3	21656876	21656881	5
Deletion	Chr12	26130530	26130532	2
Deletion	Chr5	27154164	27154182	18
Deletion	Chr4	27889153	27889156	3
Deletion	Chr4	28765001	28889000	123999	16
Deletion	Chr11	29556658	29556661	3
Deletion	Chr4	36960644	36961078	434

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	1888038	1949229
Inversion	Chr3	1888047	1950256
Inversion	Chr1	13492390	14357628	2
Inversion	Chr1	13878048	14357521	OsKitaake01g163800
Inversion	Chr1	13878054	14806599
Inversion	Chr7	20047771	20816849	OsKitaake07g164400
Inversion	Chr7	20047779	20816857	OsKitaake07g164400

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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