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Mutant Information

Mutant Name	FN1388-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1388-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) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 24

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 31411577 A-T Homo UTR_3_PRIME
SBS Chr2 14998400 G-A Hetero INTERGENIC
SBS Chr2 30942852 G-C Hetero INTERGENIC
SBS Chr3 7074847 A-G Hetero INTERGENIC
SBS Chr3 21234786 T-A Hetero INTRON
SBS Chr3 23086324 A-T Hetero INTERGENIC
SBS Chr3 35245547 G-T Hetero INTERGENIC
SBS Chr4 34790828 C-T Hetero INTERGENIC
SBS Chr5 1377264 G-T Hetero INTERGENIC
SBS Chr7 7174965 C-T Homo INTERGENIC
SBS Chr7 15482812 T-C Hetero INTERGENIC
SBS Chr7 21930158 C-T Hetero INTRON
SBS Chr7 22770728 G-A Hetero UTR_5_PRIME
SBS Chr8 11303626 G-A Homo INTERGENIC
SBS Chr9 3813585 C-T Hetero INTRON
SBS Chr9 10479789 T-G Hetero INTERGENIC
SBS Chr9 21041475 T-A Hetero INTRON
SBS Chr10 1605337 C-T Hetero INTERGENIC
SBS Chr11 4021628 T-C Hetero INTRON
SBS Chr11 5069463 A-G Hetero INTERGENIC
SBS Chr11 6700166 A-G Homo INTERGENIC
SBS Chr11 6904590 A-G Hetero INTRON
SBS Chr11 18344250 C-T Homo INTERGENIC
SBS Chr12 12274747 T-C Homo INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr11 2111001 2172000 60999 7
Deletion Chr6 2910359 2910365 6
Deletion Chr8 7263001 7410000 146999 3
Deletion Chr12 9727001 9755000 27999
Deletion Chr7 11984659 11984660 1
Deletion Chr7 11990478 11990479 1
Deletion Chr7 12696564 12696566 2
Deletion Chr8 12845098 12845099 1
Deletion Chr2 13094657 13094730 73
Deletion Chr11 14619329 14619331 2
Deletion Chr12 21807747 21807751 4
Deletion Chr12 23333392 23333397 5
Deletion Chr12 25757269 25757270 1
Deletion Chr6 31040491 31040668 177
Deletion Chr4 34908575 34908576 1

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 21014964 21014967 2
Insertion Chr6 2804268 2804271 2
Insertion Chr8 28456327 28456331 3
Insertion Chr5 12424107 12424109 1
Insertion Chr7 11037064 11037067 2
Insertion Chr12 11658594 11658596 1

Translocations: 5

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 1223441 Chr1 10143923 OsKitaake11g014600
Translocation Chr11 1223997 Chr1 10144034 OsKitaake11g014600
Translocation Chr8 13582644 Chr4 9661041
Translocation Chr6 24240336 Chr3 28243648
Translocation Chr6 24240560 Chr3 28243646

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	31411577	A-T	Homo	UTR_3_PRIME
SBS	Chr2	14998400	G-A	Hetero	INTERGENIC
SBS	Chr2	30942852	G-C	Hetero	INTERGENIC
SBS	Chr3	7074847	A-G	Hetero	INTERGENIC
SBS	Chr3	21234786	T-A	Hetero	INTRON
SBS	Chr3	23086324	A-T	Hetero	INTERGENIC
SBS	Chr3	35245547	G-T	Hetero	INTERGENIC
SBS	Chr4	34790828	C-T	Hetero	INTERGENIC
SBS	Chr5	1377264	G-T	Hetero	INTERGENIC
SBS	Chr7	7174965	C-T	Homo	INTERGENIC
SBS	Chr7	15482812	T-C	Hetero	INTERGENIC
SBS	Chr7	21930158	C-T	Hetero	INTRON
SBS	Chr7	22770728	G-A	Hetero	UTR_5_PRIME
SBS	Chr8	11303626	G-A	Homo	INTERGENIC
SBS	Chr9	3813585	C-T	Hetero	INTRON
SBS	Chr9	10479789	T-G	Hetero	INTERGENIC
SBS	Chr9	21041475	T-A	Hetero	INTRON
SBS	Chr10	1605337	C-T	Hetero	INTERGENIC
SBS	Chr11	4021628	T-C	Hetero	INTRON
SBS	Chr11	5069463	A-G	Hetero	INTERGENIC
SBS	Chr11	6700166	A-G	Homo	INTERGENIC
SBS	Chr11	6904590	A-G	Hetero	INTRON
SBS	Chr11	18344250	C-T	Homo	INTERGENIC
SBS	Chr12	12274747	T-C	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr11	2111001	2172000	60999	7
Deletion	Chr6	2910359	2910365	6
Deletion	Chr8	7263001	7410000	146999	3
Deletion	Chr12	9727001	9755000	27999
Deletion	Chr7	11984659	11984660	1
Deletion	Chr7	11990478	11990479	1
Deletion	Chr7	12696564	12696566	2
Deletion	Chr8	12845098	12845099	1
Deletion	Chr2	13094657	13094730	73
Deletion	Chr11	14619329	14619331	2
Deletion	Chr12	21807747	21807751	4
Deletion	Chr12	23333392	23333397	5
Deletion	Chr12	25757269	25757270	1
Deletion	Chr6	31040491	31040668	177
Deletion	Chr4	34908575	34908576	1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	1223441	Chr1	10143923	OsKitaake11g014600
Translocation	Chr11	1223997	Chr1	10144034	OsKitaake11g014600
Translocation	Chr8	13582644	Chr4	9661041
Translocation	Chr6	24240336	Chr3	28243648
Translocation	Chr6	24240560	Chr3	28243646

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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