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Mutant Information

Mutant Name	FN343-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN343-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Normal (Between 75% and 125%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Low (Between 25% and 75%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 37

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 4724537 C-T Hetero INTERGENIC
SBS Chr1 15172645 G-A Hetero INTRON
SBS Chr1 16720037 C-T Hetero INTERGENIC
SBS Chr1 41968249 A-T Hetero INTERGENIC
SBS Chr2 3607987 C-T Homo INTERGENIC
SBS Chr2 28486493 G-A Hetero UTR_3_PRIME
SBS Chr3 5756190 A-G Hetero INTERGENIC
SBS Chr3 11920830 C-G Hetero NON_SYNONYMOUS_CODING OsKitaake03g162100
SBS Chr4 8761295 T-G Hetero INTERGENIC
SBS Chr4 11322221 C-G Hetero INTERGENIC
SBS Chr4 14166192 G-A Hetero INTERGENIC
SBS Chr4 16280029 C-T Hetero INTERGENIC
SBS Chr4 32570378 A-T Hetero INTERGENIC
SBS Chr5 2835118 G-C Hetero NON_SYNONYMOUS_CODING OsKitaake05g032600
SBS Chr5 5184882 A-G Hetero INTERGENIC
SBS Chr5 26102537 G-A Hetero INTERGENIC
SBS Chr5 27032245 G-T Hetero INTERGENIC
SBS Chr5 27032246 G-T Hetero INTERGENIC
SBS Chr6 2497300 A-G Hetero INTERGENIC
SBS Chr6 23363014 T-C Hetero INTERGENIC
SBS Chr7 29635179 G-A Hetero INTERGENIC
SBS Chr8 22916906 C-G Homo INTERGENIC
SBS Chr8 27086170 C-T Hetero INTRON
SBS Chr9 17129190 G-T Homo INTERGENIC
SBS Chr9 17129191 A-T Homo INTERGENIC
SBS Chr9 20760271 T-G Hetero INTRON
SBS Chr10 13247892 A-G Homo NON_SYNONYMOUS_CODING OsKitaake10g079701
SBS Chr10 21526507 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake10g171200
SBS Chr10 22090213 A-G Homo INTERGENIC
SBS Chr11 6120506 G-A Hetero INTERGENIC
SBS Chr11 7355007 T-A Hetero INTERGENIC
SBS Chr11 7355008 G-A Hetero INTERGENIC
SBS Chr11 13793887 T-G Hetero INTERGENIC
SBS Chr11 15681115 C-G Hetero INTERGENIC
SBS Chr11 21536620 C-T Hetero INTERGENIC
SBS Chr11 25106787 A-T Hetero INTERGENIC
SBS Chr12 18967168 A-G Hetero INTERGENIC

Deletions: 19

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr7 168264 168274 10
Deletion Chr5 646519 646521 2
Deletion Chr4 2168206 2168207 1
Deletion Chr8 4559420 4559422 2
Deletion Chr6 5045493 5045504 11
Deletion Chr4 5587588 5587593 5
Deletion Chr3 8899911 8899920 9
Deletion Chr4 9568530 9568532 2
Deletion Chr3 10473001 10481000 7999 OsKitaake03g143300
Deletion Chr8 13626043 13626044 1
Deletion Chr5 15447051 15447059 8
Deletion Chr1 17107146 17107153 7
Deletion Chr11 19332026 19332031 5
Deletion Chr6 20552486 20552488 2
Deletion Chr12 23716303 23716311 8
Deletion Chr2 26574001 26653000 78999 12
Deletion Chr11 28863492 28863506 14
Deletion Chr2 35332312 35332322 10
Deletion Chr4 36278479 36278481 2

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 25535087 25535090 2
Insertion Chr1 41856168 41856171 2
Insertion Chr2 15665627 15665629 1
Insertion Chr6 10775264 10775267 2

Inversions: 9

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr9 9066209 9924668
Inversion Chr9 9066232 9924786
Inversion Chr5 9406702 9531624
Inversion Chr5 9541267 9578388
Inversion Chr3 10473222 10577408 OsKitaake03g143300
Inversion Chr3 10480868 10590174 OsKitaake03g143300
Inversion Chr2 26574389 26814255
Inversion Chr2 27042501 27169361 OsKitaake02g270000
Inversion Chr2 27042731 27169377 OsKitaake02g270000

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	4724537	C-T	Hetero	INTERGENIC
SBS	Chr1	15172645	G-A	Hetero	INTRON
SBS	Chr1	16720037	C-T	Hetero	INTERGENIC
SBS	Chr1	41968249	A-T	Hetero	INTERGENIC
SBS	Chr2	3607987	C-T	Homo	INTERGENIC
SBS	Chr2	28486493	G-A	Hetero	UTR_3_PRIME
SBS	Chr3	5756190	A-G	Hetero	INTERGENIC
SBS	Chr3	11920830	C-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g162100
SBS	Chr4	8761295	T-G	Hetero	INTERGENIC
SBS	Chr4	11322221	C-G	Hetero	INTERGENIC
SBS	Chr4	14166192	G-A	Hetero	INTERGENIC
SBS	Chr4	16280029	C-T	Hetero	INTERGENIC
SBS	Chr4	32570378	A-T	Hetero	INTERGENIC
SBS	Chr5	2835118	G-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake05g032600
SBS	Chr5	5184882	A-G	Hetero	INTERGENIC
SBS	Chr5	26102537	G-A	Hetero	INTERGENIC
SBS	Chr5	27032245	G-T	Hetero	INTERGENIC
SBS	Chr5	27032246	G-T	Hetero	INTERGENIC
SBS	Chr6	2497300	A-G	Hetero	INTERGENIC
SBS	Chr6	23363014	T-C	Hetero	INTERGENIC
SBS	Chr7	29635179	G-A	Hetero	INTERGENIC
SBS	Chr8	22916906	C-G	Homo	INTERGENIC
SBS	Chr8	27086170	C-T	Hetero	INTRON
SBS	Chr9	17129190	G-T	Homo	INTERGENIC
SBS	Chr9	17129191	A-T	Homo	INTERGENIC
SBS	Chr9	20760271	T-G	Hetero	INTRON
SBS	Chr10	13247892	A-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake10g079701
SBS	Chr10	21526507	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake10g171200
SBS	Chr10	22090213	A-G	Homo	INTERGENIC
SBS	Chr11	6120506	G-A	Hetero	INTERGENIC
SBS	Chr11	7355007	T-A	Hetero	INTERGENIC
SBS	Chr11	7355008	G-A	Hetero	INTERGENIC
SBS	Chr11	13793887	T-G	Hetero	INTERGENIC
SBS	Chr11	15681115	C-G	Hetero	INTERGENIC
SBS	Chr11	21536620	C-T	Hetero	INTERGENIC
SBS	Chr11	25106787	A-T	Hetero	INTERGENIC
SBS	Chr12	18967168	A-G	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr7	168264	168274	10
Deletion	Chr5	646519	646521	2
Deletion	Chr4	2168206	2168207	1
Deletion	Chr8	4559420	4559422	2
Deletion	Chr6	5045493	5045504	11
Deletion	Chr4	5587588	5587593	5
Deletion	Chr3	8899911	8899920	9
Deletion	Chr4	9568530	9568532	2
Deletion	Chr3	10473001	10481000	7999	OsKitaake03g143300
Deletion	Chr8	13626043	13626044	1
Deletion	Chr5	15447051	15447059	8
Deletion	Chr1	17107146	17107153	7
Deletion	Chr11	19332026	19332031	5
Deletion	Chr6	20552486	20552488	2
Deletion	Chr12	23716303	23716311	8
Deletion	Chr2	26574001	26653000	78999	12
Deletion	Chr11	28863492	28863506	14
Deletion	Chr2	35332312	35332322	10
Deletion	Chr4	36278479	36278481	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	9066209	9924668
Inversion	Chr9	9066232	9924786
Inversion	Chr5	9406702	9531624
Inversion	Chr5	9541267	9578388
Inversion	Chr3	10473222	10577408	OsKitaake03g143300
Inversion	Chr3	10480868	10590174	OsKitaake03g143300
Inversion	Chr2	26574389	26814255
Inversion	Chr2	27042501	27169361	OsKitaake02g270000
Inversion	Chr2	27042731	27169377	OsKitaake02g270000

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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