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Mutant Information

Mutant Name	FN3979-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN3979-S Alignment File
Seed Availability	Yes [Order Seeds]

Variant Information

Single base substitutions: 41

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 3769623 G-A Hetero SYNONYMOUS_CODING
SBS Chr1 3769624 T-A Hetero NON_SYNONYMOUS_CODING OsKitaake01g050300
SBS Chr1 6941194 G-A Hetero INTERGENIC
SBS Chr1 15023969 G-A Hetero INTERGENIC
SBS Chr1 16100530 C-G Hetero INTERGENIC
SBS Chr1 33396065 A-G Homo INTERGENIC
SBS Chr2 511782 A-C Hetero UTR_3_PRIME
SBS Chr2 23124564 G-C Hetero INTERGENIC
SBS Chr2 25156943 G-A Hetero INTERGENIC
SBS Chr3 4893543 G-A Hetero INTERGENIC
SBS Chr3 9434307 A-G Hetero INTERGENIC
SBS Chr3 10270588 A-G Hetero INTERGENIC
SBS Chr3 13665768 A-C Homo UTR_3_PRIME
SBS Chr3 37437859 C-T Hetero INTERGENIC
SBS Chr4 7776110 T-C Hetero INTERGENIC
SBS Chr4 16055267 A-G Hetero INTERGENIC
SBS Chr4 35993530 T-C Hetero INTERGENIC
SBS Chr4 36899076 C-A Hetero SPLICE_SITE_DONOR OsKitaake04g322800
SBS Chr5 21071165 G-A Hetero INTERGENIC
SBS Chr6 4737285 C-T Hetero INTERGENIC
SBS Chr6 15371807 A-G Hetero INTERGENIC
SBS Chr6 23952238 C-T Hetero UTR_3_PRIME
SBS Chr7 14374667 G-A Hetero INTERGENIC
SBS Chr7 14374668 C-A Hetero INTERGENIC
SBS Chr8 1939864 G-A Homo INTERGENIC
SBS Chr8 2670013 T-C Hetero INTERGENIC
SBS Chr8 16870617 A-G Hetero INTERGENIC
SBS Chr8 19773816 A-G Hetero INTRON
SBS Chr9 2195487 C-T Hetero INTERGENIC
SBS Chr9 3187306 G-A Hetero SYNONYMOUS_CODING
SBS Chr9 6869737 C-T Homo INTERGENIC
SBS Chr9 18779509 T-C Hetero INTERGENIC
SBS Chr9 22375303 A-T Hetero INTERGENIC
SBS Chr10 12777071 G-A Homo INTERGENIC
SBS Chr11 904330 C-A Hetero INTERGENIC
SBS Chr11 4062586 A-T Hetero INTERGENIC
SBS Chr11 12142528 C-T Hetero INTERGENIC
SBS Chr11 16622543 A-T Hetero INTERGENIC
SBS Chr11 22495829 G-A Hetero INTERGENIC
SBS Chr12 19302506 T-A Hetero INTERGENIC
SBS Chr12 19302507 G-A Hetero INTERGENIC

Deletions: 24

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr7 1606822 1606823 1
Deletion Chr2 2398793 2398798 5
Deletion Chr9 2837958 2837963 5
Deletion Chr4 4043946 4043952 6
Deletion Chr1 4127723 4127732 9 OsKitaake01g055000
Deletion Chr4 4502881 4502882 1
Deletion Chr12 5206509 5206510 1
Deletion Chr8 5781850 5781852 2
Deletion Chr6 6652243 6652247 4
Deletion Chr2 7194001 7224000 29999 6
Deletion Chr1 10068414 10068415 1
Deletion Chr9 10282224 10282225 1
Deletion Chr10 10700884 10700892 8
Deletion Chr7 11036001 11313000 276999 16
Deletion Chr3 12144941 12144951 10 OsKitaake03g164600
Deletion Chr12 13399558 13399564 6
Deletion Chr9 15391001 15422000 30999 OsKitaake09g108200
Deletion Chr8 15999886 15999892 6
Deletion Chr1 18128270 18128274 4 OsKitaake01g183000
Deletion Chr11 24993001 25047000 53999 3
Deletion Chr11 25049001 25735000 685999 66
Deletion Chr7 26733130 26733137 7
Deletion Chr1 29686449 29686450 1
Deletion Chr1 39871001 39892000 20999 4

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 9650240 9650244 3
Insertion Chr3 13150280 13150283 2 OsKitaake03g175900
Insertion Chr3 23180574 23180577 2
Insertion Chr6 17861161 17861164 2

Inversions: 3

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 7923487 7935988
Inversion Chr4 7923496 7935984
Inversion Chr9 14437417 14452228

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr12 12003007 Chr9 14437406
Translocation Chr10 19055039 Chr8 6941826

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3769623	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr1	3769624	T-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake01g050300
SBS	Chr1	6941194	G-A	Hetero	INTERGENIC
SBS	Chr1	15023969	G-A	Hetero	INTERGENIC
SBS	Chr1	16100530	C-G	Hetero	INTERGENIC
SBS	Chr1	33396065	A-G	Homo	INTERGENIC
SBS	Chr2	511782	A-C	Hetero	UTR_3_PRIME
SBS	Chr2	23124564	G-C	Hetero	INTERGENIC
SBS	Chr2	25156943	G-A	Hetero	INTERGENIC
SBS	Chr3	4893543	G-A	Hetero	INTERGENIC
SBS	Chr3	9434307	A-G	Hetero	INTERGENIC
SBS	Chr3	10270588	A-G	Hetero	INTERGENIC
SBS	Chr3	13665768	A-C	Homo	UTR_3_PRIME
SBS	Chr3	37437859	C-T	Hetero	INTERGENIC
SBS	Chr4	7776110	T-C	Hetero	INTERGENIC
SBS	Chr4	16055267	A-G	Hetero	INTERGENIC
SBS	Chr4	35993530	T-C	Hetero	INTERGENIC
SBS	Chr4	36899076	C-A	Hetero	SPLICE_SITE_DONOR	OsKitaake04g322800
SBS	Chr5	21071165	G-A	Hetero	INTERGENIC
SBS	Chr6	4737285	C-T	Hetero	INTERGENIC
SBS	Chr6	15371807	A-G	Hetero	INTERGENIC
SBS	Chr6	23952238	C-T	Hetero	UTR_3_PRIME
SBS	Chr7	14374667	G-A	Hetero	INTERGENIC
SBS	Chr7	14374668	C-A	Hetero	INTERGENIC
SBS	Chr8	1939864	G-A	Homo	INTERGENIC
SBS	Chr8	2670013	T-C	Hetero	INTERGENIC
SBS	Chr8	16870617	A-G	Hetero	INTERGENIC
SBS	Chr8	19773816	A-G	Hetero	INTRON
SBS	Chr9	2195487	C-T	Hetero	INTERGENIC
SBS	Chr9	3187306	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr9	6869737	C-T	Homo	INTERGENIC
SBS	Chr9	18779509	T-C	Hetero	INTERGENIC
SBS	Chr9	22375303	A-T	Hetero	INTERGENIC
SBS	Chr10	12777071	G-A	Homo	INTERGENIC
SBS	Chr11	904330	C-A	Hetero	INTERGENIC
SBS	Chr11	4062586	A-T	Hetero	INTERGENIC
SBS	Chr11	12142528	C-T	Hetero	INTERGENIC
SBS	Chr11	16622543	A-T	Hetero	INTERGENIC
SBS	Chr11	22495829	G-A	Hetero	INTERGENIC
SBS	Chr12	19302506	T-A	Hetero	INTERGENIC
SBS	Chr12	19302507	G-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr7	1606822	1606823	1
Deletion	Chr2	2398793	2398798	5
Deletion	Chr9	2837958	2837963	5
Deletion	Chr4	4043946	4043952	6
Deletion	Chr1	4127723	4127732	9	OsKitaake01g055000
Deletion	Chr4	4502881	4502882	1
Deletion	Chr12	5206509	5206510	1
Deletion	Chr8	5781850	5781852	2
Deletion	Chr6	6652243	6652247	4
Deletion	Chr2	7194001	7224000	29999	6
Deletion	Chr1	10068414	10068415	1
Deletion	Chr9	10282224	10282225	1
Deletion	Chr10	10700884	10700892	8
Deletion	Chr7	11036001	11313000	276999	16
Deletion	Chr3	12144941	12144951	10	OsKitaake03g164600
Deletion	Chr12	13399558	13399564	6
Deletion	Chr9	15391001	15422000	30999	OsKitaake09g108200
Deletion	Chr8	15999886	15999892	6
Deletion	Chr1	18128270	18128274	4	OsKitaake01g183000
Deletion	Chr11	24993001	25047000	53999	3
Deletion	Chr11	25049001	25735000	685999	66
Deletion	Chr7	26733130	26733137	7
Deletion	Chr1	29686449	29686450	1
Deletion	Chr1	39871001	39892000	20999	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	7923487	7935988
Inversion	Chr4	7923496	7935984
Inversion	Chr9	14437417	14452228

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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