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Mutant Information

Mutant Name	FN1682-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1682-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: 38

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 9857526 G-A Homo INTRON
SBS Chr1 15845210 C-G Hetero INTERGENIC
SBS Chr1 20406531 C-G Homo INTERGENIC
SBS Chr1 37555486 T-G Hetero INTERGENIC
SBS Chr2 7487109 A-T Hetero INTERGENIC
SBS Chr2 15885116 T-A Hetero INTERGENIC
SBS Chr2 21927967 G-A Hetero INTERGENIC
SBS Chr2 36954470 G-A Hetero UTR_3_PRIME
SBS Chr3 28135308 G-C Hetero INTERGENIC
SBS Chr3 35950656 C-A Hetero STOP_GAINED OsKitaake03g396300
SBS Chr4 14748328 T-A Homo INTERGENIC
SBS Chr4 23365673 G-A Hetero INTRON
SBS Chr4 26717449 C-A Hetero SYNONYMOUS_CODING
SBS Chr4 31055040 G-A Hetero SYNONYMOUS_CODING
SBS Chr5 11786649 A-T Homo INTERGENIC
SBS Chr7 2947007 G-A Hetero INTERGENIC
SBS Chr7 28416880 G-C Homo NON_SYNONYMOUS_CODING OsKitaake07g269600
SBS Chr9 6837445 T-A Homo INTERGENIC
SBS Chr9 11737770 G-A Hetero INTERGENIC
SBS Chr9 17599319 C-T Homo NON_SYNONYMOUS_CODING OsKitaake09g133000
SBS Chr10 955882 T-G Homo INTERGENIC
SBS Chr10 5987685 T-C Hetero INTRON
SBS Chr10 11287505 A-T Hetero INTERGENIC
SBS Chr10 12187238 C-T Hetero INTERGENIC
SBS Chr11 5902736 G-T Hetero INTERGENIC
SBS Chr11 16681595 G-T Hetero UTR_3_PRIME
SBS Chr11 24890568 A-T Homo INTERGENIC
SBS Chr11 26739447 C-T Homo INTERGENIC
SBS Chr11 27125711 T-G Homo INTERGENIC
SBS Chr11 28521119 G-C Hetero NON_SYNONYMOUS_CODING OsKitaake11g233500
SBS Chr12 9565017 G-A Hetero INTERGENIC
SBS Chr12 10585603 G-T Hetero INTERGENIC
SBS Chr12 10585604 C-T Hetero INTERGENIC
SBS Chr12 16053147 A-T Hetero INTERGENIC
SBS Chr12 18742363 T-C Hetero INTERGENIC
SBS Chr12 19320510 G-A Hetero INTERGENIC
SBS Chr12 23780401 A-G Hetero INTERGENIC
SBS Chr12 24968352 A-T Hetero INTERGENIC

Deletions: 25

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr3 409104 409106 2
Deletion Chr10 751934 751950 16
Deletion Chr10 1693051 1693055 4
Deletion Chr4 2830329 2830338 9
Deletion Chr8 3585133 3585136 3
Deletion Chr5 4477271 4477285 14
Deletion Chr7 4609741 4609743 2
Deletion Chr4 5606538 5606540 2
Deletion Chr3 9034001 9072000 37999 6
Deletion Chr1 9442389 9442392 3 OsKitaake01g121000
Deletion Chr12 9527944 9527946 2
Deletion Chr7 10647365 10647374 9
Deletion Chr8 13725434 13725435 1
Deletion Chr9 14211261 14211265 4
Deletion Chr9 15295148 15295157 9
Deletion Chr2 15885211 15885212 1
Deletion Chr2 16567151 16567153 2
Deletion Chr3 17853495 17853496 1
Deletion Chr9 19335585 19335586 1
Deletion Chr10 21831001 21995000 163999 22
Deletion Chr4 25323711 25323712 1
Deletion Chr3 25632357 25632370 13
Deletion Chr4 27323513 27323517 4
Deletion Chr4 32105837 32105840 3
Deletion Chr3 34527780 34527786 6

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 41468957 41468960 2
Insertion Chr4 17314186 17314189 2
Insertion Chr7 23637583 23637586 2
Insertion Chr7 27059882 27059885 2
Insertion Chr9 7905022 7905025 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 21565462 21781980
Inversion Chr10 21565482 21998512

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	9857526	G-A	Homo	INTRON
SBS	Chr1	15845210	C-G	Hetero	INTERGENIC
SBS	Chr1	20406531	C-G	Homo	INTERGENIC
SBS	Chr1	37555486	T-G	Hetero	INTERGENIC
SBS	Chr2	7487109	A-T	Hetero	INTERGENIC
SBS	Chr2	15885116	T-A	Hetero	INTERGENIC
SBS	Chr2	21927967	G-A	Hetero	INTERGENIC
SBS	Chr2	36954470	G-A	Hetero	UTR_3_PRIME
SBS	Chr3	28135308	G-C	Hetero	INTERGENIC
SBS	Chr3	35950656	C-A	Hetero	STOP_GAINED	OsKitaake03g396300
SBS	Chr4	14748328	T-A	Homo	INTERGENIC
SBS	Chr4	23365673	G-A	Hetero	INTRON
SBS	Chr4	26717449	C-A	Hetero	SYNONYMOUS_CODING
SBS	Chr4	31055040	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr5	11786649	A-T	Homo	INTERGENIC
SBS	Chr7	2947007	G-A	Hetero	INTERGENIC
SBS	Chr7	28416880	G-C	Homo	NON_SYNONYMOUS_CODING	OsKitaake07g269600
SBS	Chr9	6837445	T-A	Homo	INTERGENIC
SBS	Chr9	11737770	G-A	Hetero	INTERGENIC
SBS	Chr9	17599319	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake09g133000
SBS	Chr10	955882	T-G	Homo	INTERGENIC
SBS	Chr10	5987685	T-C	Hetero	INTRON
SBS	Chr10	11287505	A-T	Hetero	INTERGENIC
SBS	Chr10	12187238	C-T	Hetero	INTERGENIC
SBS	Chr11	5902736	G-T	Hetero	INTERGENIC
SBS	Chr11	16681595	G-T	Hetero	UTR_3_PRIME
SBS	Chr11	24890568	A-T	Homo	INTERGENIC
SBS	Chr11	26739447	C-T	Homo	INTERGENIC
SBS	Chr11	27125711	T-G	Homo	INTERGENIC
SBS	Chr11	28521119	G-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g233500
SBS	Chr12	9565017	G-A	Hetero	INTERGENIC
SBS	Chr12	10585603	G-T	Hetero	INTERGENIC
SBS	Chr12	10585604	C-T	Hetero	INTERGENIC
SBS	Chr12	16053147	A-T	Hetero	INTERGENIC
SBS	Chr12	18742363	T-C	Hetero	INTERGENIC
SBS	Chr12	19320510	G-A	Hetero	INTERGENIC
SBS	Chr12	23780401	A-G	Hetero	INTERGENIC
SBS	Chr12	24968352	A-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr3	409104	409106	2
Deletion	Chr10	751934	751950	16
Deletion	Chr10	1693051	1693055	4
Deletion	Chr4	2830329	2830338	9
Deletion	Chr8	3585133	3585136	3
Deletion	Chr5	4477271	4477285	14
Deletion	Chr7	4609741	4609743	2
Deletion	Chr4	5606538	5606540	2
Deletion	Chr3	9034001	9072000	37999	6
Deletion	Chr1	9442389	9442392	3	OsKitaake01g121000
Deletion	Chr12	9527944	9527946	2
Deletion	Chr7	10647365	10647374	9
Deletion	Chr8	13725434	13725435	1
Deletion	Chr9	14211261	14211265	4
Deletion	Chr9	15295148	15295157	9
Deletion	Chr2	15885211	15885212	1
Deletion	Chr2	16567151	16567153	2
Deletion	Chr3	17853495	17853496	1
Deletion	Chr9	19335585	19335586	1
Deletion	Chr10	21831001	21995000	163999	22
Deletion	Chr4	25323711	25323712	1
Deletion	Chr3	25632357	25632370	13
Deletion	Chr4	27323513	27323517	4
Deletion	Chr4	32105837	32105840	3
Deletion	Chr3	34527780	34527786	6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	21565462	21781980
Inversion	Chr10	21565482	21998512

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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