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Mutant Information

Mutant Name	FN1481-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1481-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) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 43

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 21041122 G-A Hetero UTR_5_PRIME
SBS Chr1 22037144 G-A Hetero INTERGENIC
SBS Chr1 23266567 C-A Hetero INTRON
SBS Chr1 34064173 G-A Hetero INTERGENIC
SBS Chr2 5984275 A-T Hetero INTERGENIC
SBS Chr2 5984276 A-T Hetero INTERGENIC
SBS Chr2 17112344 C-A Hetero INTERGENIC
SBS Chr3 1793370 T-A Hetero INTERGENIC
SBS Chr3 6889464 T-C Hetero INTERGENIC
SBS Chr3 12507998 C-T Hetero SYNONYMOUS_CODING
SBS Chr3 28171955 G-T Hetero INTERGENIC
SBS Chr4 3130979 T-C Hetero INTERGENIC
SBS Chr4 6648410 C-G Homo INTERGENIC
SBS Chr4 13862279 A-T Homo INTERGENIC
SBS Chr5 1008408 T-A Hetero INTERGENIC
SBS Chr5 5471493 C-T Hetero INTERGENIC
SBS Chr5 10566689 G-A Hetero INTERGENIC
SBS Chr5 11432102 A-G Homo INTERGENIC
SBS Chr5 23598496 A-T Hetero INTERGENIC
SBS Chr6 2765252 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake06g037800
SBS Chr6 3776809 G-A Hetero INTERGENIC
SBS Chr6 18948307 T-C Hetero INTRON
SBS Chr6 20553213 G-A Hetero INTERGENIC
SBS Chr6 22238277 G-T Hetero INTERGENIC
SBS Chr6 25222596 A-T Hetero INTERGENIC
SBS Chr7 16646497 C-T Hetero INTERGENIC
SBS Chr7 25601632 A-G Hetero UTR_3_PRIME
SBS Chr9 2614888 C-T Homo INTERGENIC
SBS Chr9 3089518 T-A Hetero INTERGENIC
SBS Chr9 7148268 G-A Hetero INTERGENIC
SBS Chr9 15265234 G-A Hetero INTERGENIC
SBS Chr9 15977774 G-C Hetero INTERGENIC
SBS Chr10 22630809 C-T Hetero SPLICE_SITE_DONOR OsKitaake10g187200
SBS Chr11 7470393 G-A Hetero INTRON
SBS Chr11 15473011 G-T Hetero INTERGENIC
SBS Chr11 21957400 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake11g173800
SBS Chr12 8132058 G-A Homo INTERGENIC
SBS Chr12 9478610 G-A Hetero INTERGENIC
SBS Chr12 14655074 C-T Hetero INTERGENIC
SBS Chr12 16442092 A-G Hetero INTERGENIC
SBS Chr12 17017999 G-C Hetero INTERGENIC
SBS Chr12 19651400 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake12g147766
SBS Chr12 23408723 C-T Hetero INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 5763151 5763168 17
Deletion Chr2 5853716 5853722 6
Deletion Chr6 8462674 8462677 3
Deletion Chr1 9641001 9660000 18999 2
Deletion Chr11 10680262 10680264 2 OsKitaake11g105300
Deletion Chr5 12515860 12515861 1
Deletion Chr5 14713705 14713710 5
Deletion Chr4 20478070 20478071 1
Deletion Chr4 25256995 25256996 1
Deletion Chr3 25632156 25632160 4
Deletion Chr11 27387001 27529000 141999 7
Deletion Chr3 28171927 28171935 8
Deletion Chr1 40467710 40467711 1

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 7226534 7226537 2
Insertion Chr6 2252084 2252088 3
Insertion Chr11 21750488 21750491 2

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 11699513 11823638

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr7 12419677 Chr5 18382632

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	21041122	G-A	Hetero	UTR_5_PRIME
SBS	Chr1	22037144	G-A	Hetero	INTERGENIC
SBS	Chr1	23266567	C-A	Hetero	INTRON
SBS	Chr1	34064173	G-A	Hetero	INTERGENIC
SBS	Chr2	5984275	A-T	Hetero	INTERGENIC
SBS	Chr2	5984276	A-T	Hetero	INTERGENIC
SBS	Chr2	17112344	C-A	Hetero	INTERGENIC
SBS	Chr3	1793370	T-A	Hetero	INTERGENIC
SBS	Chr3	6889464	T-C	Hetero	INTERGENIC
SBS	Chr3	12507998	C-T	Hetero	SYNONYMOUS_CODING
SBS	Chr3	28171955	G-T	Hetero	INTERGENIC
SBS	Chr4	3130979	T-C	Hetero	INTERGENIC
SBS	Chr4	6648410	C-G	Homo	INTERGENIC
SBS	Chr4	13862279	A-T	Homo	INTERGENIC
SBS	Chr5	1008408	T-A	Hetero	INTERGENIC
SBS	Chr5	5471493	C-T	Hetero	INTERGENIC
SBS	Chr5	10566689	G-A	Hetero	INTERGENIC
SBS	Chr5	11432102	A-G	Homo	INTERGENIC
SBS	Chr5	23598496	A-T	Hetero	INTERGENIC
SBS	Chr6	2765252	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g037800
SBS	Chr6	3776809	G-A	Hetero	INTERGENIC
SBS	Chr6	18948307	T-C	Hetero	INTRON
SBS	Chr6	20553213	G-A	Hetero	INTERGENIC
SBS	Chr6	22238277	G-T	Hetero	INTERGENIC
SBS	Chr6	25222596	A-T	Hetero	INTERGENIC
SBS	Chr7	16646497	C-T	Hetero	INTERGENIC
SBS	Chr7	25601632	A-G	Hetero	UTR_3_PRIME
SBS	Chr9	2614888	C-T	Homo	INTERGENIC
SBS	Chr9	3089518	T-A	Hetero	INTERGENIC
SBS	Chr9	7148268	G-A	Hetero	INTERGENIC
SBS	Chr9	15265234	G-A	Hetero	INTERGENIC
SBS	Chr9	15977774	G-C	Hetero	INTERGENIC
SBS	Chr10	22630809	C-T	Hetero	SPLICE_SITE_DONOR	OsKitaake10g187200
SBS	Chr11	7470393	G-A	Hetero	INTRON
SBS	Chr11	15473011	G-T	Hetero	INTERGENIC
SBS	Chr11	21957400	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g173800
SBS	Chr12	8132058	G-A	Homo	INTERGENIC
SBS	Chr12	9478610	G-A	Hetero	INTERGENIC
SBS	Chr12	14655074	C-T	Hetero	INTERGENIC
SBS	Chr12	16442092	A-G	Hetero	INTERGENIC
SBS	Chr12	17017999	G-C	Hetero	INTERGENIC
SBS	Chr12	19651400	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake12g147766
SBS	Chr12	23408723	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	5763151	5763168	17
Deletion	Chr2	5853716	5853722	6
Deletion	Chr6	8462674	8462677	3
Deletion	Chr1	9641001	9660000	18999	2
Deletion	Chr11	10680262	10680264	2	OsKitaake11g105300
Deletion	Chr5	12515860	12515861	1
Deletion	Chr5	14713705	14713710	5
Deletion	Chr4	20478070	20478071	1
Deletion	Chr4	25256995	25256996	1
Deletion	Chr3	25632156	25632160	4
Deletion	Chr11	27387001	27529000	141999	7
Deletion	Chr3	28171927	28171935	8
Deletion	Chr1	40467710	40467711	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	11699513	11823638

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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