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Mutant Information

Mutant Name	FN1292-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1292-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) = High (Between 126% and 175%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 36

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 14478690 A-C Homo INTERGENIC
SBS Chr2 4835120 G-C Hetero INTERGENIC
SBS Chr2 8487993 C-T Hetero UTR_3_PRIME
SBS Chr2 17487784 T-A Hetero INTERGENIC
SBS Chr2 21845507 T-C Hetero INTRON
SBS Chr2 31544335 G-A Hetero INTERGENIC
SBS Chr2 34986299 G-A Hetero INTRON
SBS Chr3 11633190 C-A Homo INTERGENIC
SBS Chr3 16348064 G-T Hetero INTERGENIC
SBS Chr3 21473946 G-A Hetero INTERGENIC
SBS Chr3 27136323 G-A Hetero INTERGENIC
SBS Chr4 3673987 T-G Hetero INTERGENIC
SBS Chr4 9154573 G-A Hetero INTERGENIC
SBS Chr4 17403680 G-A Hetero INTERGENIC
SBS Chr4 31582623 T-A Homo SPLICE_SITE_REGION
SBS Chr5 6351485 C-T Hetero INTERGENIC
SBS Chr5 9566440 C-T Hetero INTRON
SBS Chr5 10885173 C-A Hetero INTERGENIC
SBS Chr5 12598272 A-T Hetero INTERGENIC
SBS Chr5 26349027 G-C Hetero NON_SYNONYMOUS_CODING OsKitaake05g232800
SBS Chr6 8370558 C-A Hetero INTRON
SBS Chr7 20653450 T-C Hetero SPLICE_SITE_DONOR OsKitaake07g169500
SBS Chr8 2322005 A-G Hetero INTERGENIC
SBS Chr8 10509121 A-C Homo UTR_3_PRIME
SBS Chr8 18161517 A-T Homo INTERGENIC
SBS Chr8 25994158 A-T Hetero INTERGENIC
SBS Chr8 25994160 A-T Hetero INTERGENIC
SBS Chr9 3244334 A-T Hetero INTERGENIC
SBS Chr9 5410427 C-G Hetero INTERGENIC
SBS Chr9 7956228 G-A Hetero INTERGENIC
SBS Chr9 7956231 G-A Hetero INTERGENIC
SBS Chr10 4780461 A-C Hetero INTERGENIC
SBS Chr10 5183745 G-A Hetero INTERGENIC
SBS Chr10 5459576 T-C Hetero INTERGENIC
SBS Chr10 10127149 G-A Hetero INTERGENIC
SBS Chr12 23341354 A-G Hetero INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 5696212 5696213 1
Deletion Chr6 8383638 8383639 1
Deletion Chr12 10890047 10890048 1
Deletion Chr6 12584093 12584094 1
Deletion Chr6 12682001 12713000 30999 7
Deletion Chr6 12718001 12749000 30999 OsKitaake06g136000
Deletion Chr6 12781001 12997000 215999 18
Deletion Chr6 13000001 13385000 384999 28
Deletion Chr3 15964567 15964568 1
Deletion Chr1 20125940 20125949 9
Deletion Chr3 20147187 20147193 6
Deletion Chr7 20164084 20164086 2
Deletion Chr7 26690597 26690608 11
Deletion Chr4 27961130 27961133 3
Deletion Chr4 33615962 33615967 5

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 20847101 20847104 2
Insertion Chr11 23329670 23329673 2
Insertion Chr11 26444467 26444470 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 36402585 36680743 OsKitaake02g385800
Inversion Chr2 36402614 36680956 OsKitaake02g385800

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	14478690	A-C	Homo	INTERGENIC
SBS	Chr2	4835120	G-C	Hetero	INTERGENIC
SBS	Chr2	8487993	C-T	Hetero	UTR_3_PRIME
SBS	Chr2	17487784	T-A	Hetero	INTERGENIC
SBS	Chr2	21845507	T-C	Hetero	INTRON
SBS	Chr2	31544335	G-A	Hetero	INTERGENIC
SBS	Chr2	34986299	G-A	Hetero	INTRON
SBS	Chr3	11633190	C-A	Homo	INTERGENIC
SBS	Chr3	16348064	G-T	Hetero	INTERGENIC
SBS	Chr3	21473946	G-A	Hetero	INTERGENIC
SBS	Chr3	27136323	G-A	Hetero	INTERGENIC
SBS	Chr4	3673987	T-G	Hetero	INTERGENIC
SBS	Chr4	9154573	G-A	Hetero	INTERGENIC
SBS	Chr4	17403680	G-A	Hetero	INTERGENIC
SBS	Chr4	31582623	T-A	Homo	SPLICE_SITE_REGION
SBS	Chr5	6351485	C-T	Hetero	INTERGENIC
SBS	Chr5	9566440	C-T	Hetero	INTRON
SBS	Chr5	10885173	C-A	Hetero	INTERGENIC
SBS	Chr5	12598272	A-T	Hetero	INTERGENIC
SBS	Chr5	26349027	G-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g232800
SBS	Chr6	8370558	C-A	Hetero	INTRON
SBS	Chr7	20653450	T-C	Hetero	SPLICE_SITE_DONOR	OsKitaake07g169500
SBS	Chr8	2322005	A-G	Hetero	INTERGENIC
SBS	Chr8	10509121	A-C	Homo	UTR_3_PRIME
SBS	Chr8	18161517	A-T	Homo	INTERGENIC
SBS	Chr8	25994158	A-T	Hetero	INTERGENIC
SBS	Chr8	25994160	A-T	Hetero	INTERGENIC
SBS	Chr9	3244334	A-T	Hetero	INTERGENIC
SBS	Chr9	5410427	C-G	Hetero	INTERGENIC
SBS	Chr9	7956228	G-A	Hetero	INTERGENIC
SBS	Chr9	7956231	G-A	Hetero	INTERGENIC
SBS	Chr10	4780461	A-C	Hetero	INTERGENIC
SBS	Chr10	5183745	G-A	Hetero	INTERGENIC
SBS	Chr10	5459576	T-C	Hetero	INTERGENIC
SBS	Chr10	10127149	G-A	Hetero	INTERGENIC
SBS	Chr12	23341354	A-G	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	5696212	5696213	1
Deletion	Chr6	8383638	8383639	1
Deletion	Chr12	10890047	10890048	1
Deletion	Chr6	12584093	12584094	1
Deletion	Chr6	12682001	12713000	30999	7
Deletion	Chr6	12718001	12749000	30999	OsKitaake06g136000
Deletion	Chr6	12781001	12997000	215999	18
Deletion	Chr6	13000001	13385000	384999	28
Deletion	Chr3	15964567	15964568	1
Deletion	Chr1	20125940	20125949	9
Deletion	Chr3	20147187	20147193	6
Deletion	Chr7	20164084	20164086	2
Deletion	Chr7	26690597	26690608	11
Deletion	Chr4	27961130	27961133	3
Deletion	Chr4	33615962	33615967	5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	36402585	36680743	OsKitaake02g385800
Inversion	Chr2	36402614	36680956	OsKitaake02g385800

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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