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Mutant Information

Mutant Name	FN1239-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1239-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: 32

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 11949537 T-A Hetero INTERGENIC
SBS Chr1 37269518 G-A Homo INTERGENIC
SBS Chr2 31405883 C-T Homo INTERGENIC
SBS Chr3 1942136 T-C Homo INTERGENIC
SBS Chr3 14477570 G-C Homo INTERGENIC
SBS Chr3 33105359 A-C Hetero INTERGENIC
SBS Chr4 2098228 C-T Homo INTERGENIC
SBS Chr4 21880500 C-T Homo INTERGENIC
SBS Chr4 27331989 T-C Homo INTERGENIC
SBS Chr4 34165605 C-T Hetero INTERGENIC
SBS Chr5 6849696 T-A Homo INTERGENIC
SBS Chr5 18682290 G-C Homo INTERGENIC
SBS Chr6 12571044 G-T Homo NON_SYNONYMOUS_CODING OsKitaake06g134200
SBS Chr6 21282240 A-T Hetero INTERGENIC
SBS Chr6 26620129 G-A Hetero INTERGENIC
SBS Chr7 18864556 A-T Homo INTERGENIC
SBS Chr7 20463604 C-A Hetero INTERGENIC
SBS Chr7 21796723 C-T Hetero INTERGENIC
SBS Chr8 11199916 G-A Hetero INTERGENIC
SBS Chr8 11417190 A-G Hetero INTERGENIC
SBS Chr9 11901142 C-A Hetero INTERGENIC
SBS Chr9 19495406 C-T Hetero INTRON
SBS Chr10 8030434 C-A Hetero INTERGENIC
SBS Chr10 13974423 G-A Hetero INTERGENIC
SBS Chr10 16430961 C-T Hetero INTRON
SBS Chr11 16856469 G-A Hetero INTERGENIC
SBS Chr11 18599030 G-A Hetero INTERGENIC
SBS Chr11 25889226 T-C Hetero INTERGENIC
SBS Chr12 1071682 A-T Hetero INTRON
SBS Chr12 1370163 G-A Hetero INTERGENIC
SBS Chr12 21613267 G-A Homo INTERGENIC
SBS Chr12 23122923 A-T Homo INTRON

Deletions: 18

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 563145 563212 67
Deletion Chr11 762001 782000 19999 5
Deletion Chr7 2855114 2855120 6
Deletion Chr4 7573217 7573222 5
Deletion Chr4 8345709 8345776 67
Deletion Chr8 8654386 8654390 4
Deletion Chr11 10705001 10714000 8999
Deletion Chr7 12644001 12666000 21999 3
Deletion Chr2 16469171 16469183 12
Deletion Chr3 17199948 17199949 1
Deletion Chr1 20212196 20212203 7
Deletion Chr5 27290368 27290371 3
Deletion Chr8 27506374 27506376 2
Deletion Chr1 28577527 28577531 4
Deletion Chr3 28944102 28944104 2
Deletion Chr2 29670107 29670110 3
Deletion Chr1 32799414 32799423 9
Deletion Chr1 41616236 41616237 1 OsKitaake01g454500

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 24166984 24166987 2
Insertion Chr5 351770 351773 2
Insertion Chr5 6785620 6785623 2
Insertion Chr8 4536471 4536474 2

Inversions: 6

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 2097315 2531776 OsKitaake08g024600
Inversion Chr8 2299117 2531772
Inversion Chr11 6564241 7205381
Inversion Chr11 6564244 7205388
Inversion Chr1 19734234 19740643
Inversion Chr1 19734238 19740646

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr12 1295077 Chr4 20873564 OsKitaake04g113800
Translocation Chr12 1295086 Chr4 20874221 OsKitaake04g113800
Translocation Chr5 1403710 Chr3 15238985 OsKitaake05g017400
Translocation Chr5 1403719 Chr3 15238970 OsKitaake05g017400
Translocation Chr5 10058640 Chr3 14300868 2
Translocation Chr5 10058646 Chr3 14300879 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	11949537	T-A	Hetero	INTERGENIC
SBS	Chr1	37269518	G-A	Homo	INTERGENIC
SBS	Chr2	31405883	C-T	Homo	INTERGENIC
SBS	Chr3	1942136	T-C	Homo	INTERGENIC
SBS	Chr3	14477570	G-C	Homo	INTERGENIC
SBS	Chr3	33105359	A-C	Hetero	INTERGENIC
SBS	Chr4	2098228	C-T	Homo	INTERGENIC
SBS	Chr4	21880500	C-T	Homo	INTERGENIC
SBS	Chr4	27331989	T-C	Homo	INTERGENIC
SBS	Chr4	34165605	C-T	Hetero	INTERGENIC
SBS	Chr5	6849696	T-A	Homo	INTERGENIC
SBS	Chr5	18682290	G-C	Homo	INTERGENIC
SBS	Chr6	12571044	G-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake06g134200
SBS	Chr6	21282240	A-T	Hetero	INTERGENIC
SBS	Chr6	26620129	G-A	Hetero	INTERGENIC
SBS	Chr7	18864556	A-T	Homo	INTERGENIC
SBS	Chr7	20463604	C-A	Hetero	INTERGENIC
SBS	Chr7	21796723	C-T	Hetero	INTERGENIC
SBS	Chr8	11199916	G-A	Hetero	INTERGENIC
SBS	Chr8	11417190	A-G	Hetero	INTERGENIC
SBS	Chr9	11901142	C-A	Hetero	INTERGENIC
SBS	Chr9	19495406	C-T	Hetero	INTRON
SBS	Chr10	8030434	C-A	Hetero	INTERGENIC
SBS	Chr10	13974423	G-A	Hetero	INTERGENIC
SBS	Chr10	16430961	C-T	Hetero	INTRON
SBS	Chr11	16856469	G-A	Hetero	INTERGENIC
SBS	Chr11	18599030	G-A	Hetero	INTERGENIC
SBS	Chr11	25889226	T-C	Hetero	INTERGENIC
SBS	Chr12	1071682	A-T	Hetero	INTRON
SBS	Chr12	1370163	G-A	Hetero	INTERGENIC
SBS	Chr12	21613267	G-A	Homo	INTERGENIC
SBS	Chr12	23122923	A-T	Homo	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	563145	563212	67
Deletion	Chr11	762001	782000	19999	5
Deletion	Chr7	2855114	2855120	6
Deletion	Chr4	7573217	7573222	5
Deletion	Chr4	8345709	8345776	67
Deletion	Chr8	8654386	8654390	4
Deletion	Chr11	10705001	10714000	8999
Deletion	Chr7	12644001	12666000	21999	3
Deletion	Chr2	16469171	16469183	12
Deletion	Chr3	17199948	17199949	1
Deletion	Chr1	20212196	20212203	7
Deletion	Chr5	27290368	27290371	3
Deletion	Chr8	27506374	27506376	2
Deletion	Chr1	28577527	28577531	4
Deletion	Chr3	28944102	28944104	2
Deletion	Chr2	29670107	29670110	3
Deletion	Chr1	32799414	32799423	9
Deletion	Chr1	41616236	41616237	1	OsKitaake01g454500

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	2097315	2531776	OsKitaake08g024600
Inversion	Chr8	2299117	2531772
Inversion	Chr11	6564241	7205381
Inversion	Chr11	6564244	7205388
Inversion	Chr1	19734234	19740643
Inversion	Chr1	19734238	19740646

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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