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Mutant Information

Mutant Name	FN1525-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1525-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000346 (Tiller number) = High (Between 126% and 175%) TO:0000430 (Germination Rate) = Very Low (Below 24%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 35

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 6791865 G-A Hetero INTERGENIC
SBS Chr2 1823148 G-A Hetero SYNONYMOUS_CODING
SBS Chr2 35080599 A-T Hetero INTERGENIC
SBS Chr3 337966 A-G Homo INTERGENIC
SBS Chr3 21717440 A-G Hetero INTERGENIC
SBS Chr3 22815680 C-T Hetero INTRON
SBS Chr3 26532849 C-T Hetero INTERGENIC
SBS Chr4 7168586 G-A Hetero INTRON
SBS Chr4 14144209 C-A Hetero INTERGENIC
SBS Chr4 24938441 G-A Homo INTERGENIC
SBS Chr4 29845240 A-T Homo INTERGENIC
SBS Chr4 33274803 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake04g272101
SBS Chr5 7339498 T-C Hetero INTERGENIC
SBS Chr5 17133740 C-A Hetero INTERGENIC
SBS Chr6 3778685 C-T Hetero INTERGENIC
SBS Chr7 826559 T-A Hetero NON_SYNONYMOUS_CODING OsKitaake07g010400
SBS Chr7 826560 C-A Hetero STOP_GAINED OsKitaake07g010400
SBS Chr7 932742 T-A Hetero INTERGENIC
SBS Chr7 2249731 T-C Hetero UTR_3_PRIME
SBS Chr8 9779009 A-T Hetero INTERGENIC
SBS Chr8 12075319 A-T Hetero INTERGENIC
SBS Chr8 15127676 G-A Hetero UTR_3_PRIME
SBS Chr8 15492337 G-T Hetero INTERGENIC
SBS Chr9 13090332 C-T Hetero INTRON
SBS Chr10 117961 C-T Hetero INTRON
SBS Chr10 2368566 A-G Hetero INTERGENIC
SBS Chr10 8586360 C-T Hetero INTERGENIC
SBS Chr10 16527681 T-A Homo INTERGENIC
SBS Chr10 19083433 G-A Hetero SYNONYMOUS_CODING
SBS Chr11 9280353 G-A Hetero INTERGENIC
SBS Chr11 18327646 T-A Hetero INTERGENIC
SBS Chr11 21795241 C-A Hetero INTERGENIC
SBS Chr12 16788910 C-T Hetero INTERGENIC
SBS Chr12 17831146 G-A Hetero INTERGENIC
SBS Chr12 21458539 C-A Hetero INTERGENIC

Deletions: 19

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 2429329 2429331 2
Deletion Chr1 2490192 2490193 1
Deletion Chr9 3585917 3586098 181
Deletion Chr12 4774330 4774331 1
Deletion Chr2 12514423 12514424 1 OsKitaake02g140700
Deletion Chr8 14579195 14579199 4
Deletion Chr10 14688200 14688202 2
Deletion Chr9 15239584 15239591 7
Deletion Chr7 17034358 17034366 8
Deletion Chr11 17859540 17859541 1
Deletion Chr10 18369159 18369177 18
Deletion Chr11 20691866 20691872 6
Deletion Chr5 22779001 22793000 13999 3
Deletion Chr5 27651632 27651634 2
Deletion Chr1 28516237 28516243 6
Deletion Chr6 28971916 28971919 3
Deletion Chr1 29310428 29310429 1
Deletion Chr6 29597722 29597733 11
Deletion Chr2 36060817 36060829 12

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 25376497 25376500 2
Insertion Chr6 15924 15927 2
Insertion Chr8 2510172 2510174 1

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 5386620 5407415

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr5 22778477 Chr1 3095781
Translocation Chr5 22793026 Chr1 3095844 OsKitaake05g188400

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	6791865	G-A	Hetero	INTERGENIC
SBS	Chr2	1823148	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr2	35080599	A-T	Hetero	INTERGENIC
SBS	Chr3	337966	A-G	Homo	INTERGENIC
SBS	Chr3	21717440	A-G	Hetero	INTERGENIC
SBS	Chr3	22815680	C-T	Hetero	INTRON
SBS	Chr3	26532849	C-T	Hetero	INTERGENIC
SBS	Chr4	7168586	G-A	Hetero	INTRON
SBS	Chr4	14144209	C-A	Hetero	INTERGENIC
SBS	Chr4	24938441	G-A	Homo	INTERGENIC
SBS	Chr4	29845240	A-T	Homo	INTERGENIC
SBS	Chr4	33274803	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g272101
SBS	Chr5	7339498	T-C	Hetero	INTERGENIC
SBS	Chr5	17133740	C-A	Hetero	INTERGENIC
SBS	Chr6	3778685	C-T	Hetero	INTERGENIC
SBS	Chr7	826559	T-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake07g010400
SBS	Chr7	826560	C-A	Hetero	STOP_GAINED	OsKitaake07g010400
SBS	Chr7	932742	T-A	Hetero	INTERGENIC
SBS	Chr7	2249731	T-C	Hetero	UTR_3_PRIME
SBS	Chr8	9779009	A-T	Hetero	INTERGENIC
SBS	Chr8	12075319	A-T	Hetero	INTERGENIC
SBS	Chr8	15127676	G-A	Hetero	UTR_3_PRIME
SBS	Chr8	15492337	G-T	Hetero	INTERGENIC
SBS	Chr9	13090332	C-T	Hetero	INTRON
SBS	Chr10	117961	C-T	Hetero	INTRON
SBS	Chr10	2368566	A-G	Hetero	INTERGENIC
SBS	Chr10	8586360	C-T	Hetero	INTERGENIC
SBS	Chr10	16527681	T-A	Homo	INTERGENIC
SBS	Chr10	19083433	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr11	9280353	G-A	Hetero	INTERGENIC
SBS	Chr11	18327646	T-A	Hetero	INTERGENIC
SBS	Chr11	21795241	C-A	Hetero	INTERGENIC
SBS	Chr12	16788910	C-T	Hetero	INTERGENIC
SBS	Chr12	17831146	G-A	Hetero	INTERGENIC
SBS	Chr12	21458539	C-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	2429329	2429331	2
Deletion	Chr1	2490192	2490193	1
Deletion	Chr9	3585917	3586098	181
Deletion	Chr12	4774330	4774331	1
Deletion	Chr2	12514423	12514424	1	OsKitaake02g140700
Deletion	Chr8	14579195	14579199	4
Deletion	Chr10	14688200	14688202	2
Deletion	Chr9	15239584	15239591	7
Deletion	Chr7	17034358	17034366	8
Deletion	Chr11	17859540	17859541	1
Deletion	Chr10	18369159	18369177	18
Deletion	Chr11	20691866	20691872	6
Deletion	Chr5	22779001	22793000	13999	3
Deletion	Chr5	27651632	27651634	2
Deletion	Chr1	28516237	28516243	6
Deletion	Chr6	28971916	28971919	3
Deletion	Chr1	29310428	29310429	1
Deletion	Chr6	29597722	29597733	11
Deletion	Chr2	36060817	36060829	12

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	5386620	5407415

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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