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Mutant Information

Mutant Name	FN1228-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1228-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) = High (Between 126% and 175%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 44

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 12451007 T-C Hetero INTERGENIC
SBS Chr1 16763965 T-C Hetero INTERGENIC
SBS Chr1 26215432 C-A Homo INTERGENIC
SBS Chr2 5038553 C-T Homo INTERGENIC
SBS Chr2 5630996 T-A Homo INTERGENIC
SBS Chr2 12669742 T-C Homo INTERGENIC
SBS Chr2 20207347 G-A Hetero INTERGENIC
SBS Chr3 6679633 G-A Homo INTERGENIC
SBS Chr3 15346084 T-C Hetero INTERGENIC
SBS Chr3 25065704 C-T Homo INTERGENIC
SBS Chr3 30488364 C-G Hetero INTERGENIC
SBS Chr3 30488373 C-T Hetero INTERGENIC
SBS Chr3 35957182 A-T Hetero INTERGENIC
SBS Chr3 36850645 C-T Hetero INTERGENIC
SBS Chr4 5015930 C-A Hetero INTERGENIC
SBS Chr4 8096672 C-G Hetero INTERGENIC
SBS Chr4 11199685 G-A Hetero INTERGENIC
SBS Chr4 16435891 C-G Hetero INTERGENIC
SBS Chr4 36293302 A-T Hetero INTRON
SBS Chr5 9029861 C-T Homo INTERGENIC
SBS Chr5 9912161 G-C Hetero INTERGENIC
SBS Chr5 14219610 G-A Homo NON_SYNONYMOUS_CODING OsKitaake05g109000
SBS Chr5 21750049 A-T Hetero INTERGENIC
SBS Chr5 26131786 C-A Hetero UTR_5_PRIME
SBS Chr5 29351383 G-A Hetero INTERGENIC
SBS Chr6 5980670 C-T Hetero INTERGENIC
SBS Chr6 22296129 A-G Hetero INTERGENIC
SBS Chr6 23453577 T-C Hetero INTERGENIC
SBS Chr7 17134096 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake07g140100
SBS Chr7 18626462 G-A Hetero INTERGENIC
SBS Chr7 23972006 T-G Homo UTR_5_PRIME
SBS Chr7 25002096 C-A Homo INTERGENIC
SBS Chr8 7120573 G-A Hetero INTERGENIC
SBS Chr8 7213195 C-T Hetero INTERGENIC
SBS Chr9 5270917 A-G Homo INTERGENIC
SBS Chr9 8922190 G-T Homo INTERGENIC
SBS Chr10 13049725 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake10g079400
SBS Chr10 19763119 C-T Hetero INTERGENIC
SBS Chr11 7319040 G-A Hetero INTERGENIC
SBS Chr11 7319041 T-A Hetero INTERGENIC
SBS Chr12 6938321 G-A Hetero INTERGENIC
SBS Chr12 11891238 G-A Hetero INTERGENIC
SBS Chr12 14092856 A-C Hetero INTERGENIC
SBS Chr12 15220558 G-A Hetero INTERGENIC

Deletions: 19

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr3 1767693 1767704 11
Deletion Chr3 3672706 3672709 3
Deletion Chr1 5837825 5837826 1
Deletion Chr9 9099520 9099523 3 OsKitaake09g053200
Deletion Chr9 10190548 10190557 9
Deletion Chr1 11727091 11727096 5
Deletion Chr6 12379167 12379252 85
Deletion Chr1 17412223 17412224 1
Deletion Chr11 17602827 17602828 1
Deletion Chr7 18630746 18630748 2
Deletion Chr7 20149316 20149319 3 OsKitaake07g165400
Deletion Chr9 20939107 20939109 2
Deletion Chr4 24461001 24474000 12999
Deletion Chr1 25835642 25835651 9
Deletion Chr8 25865744 25865748 4 OsKitaake08g205500
Deletion Chr12 26720001 26734000 13999 OsKitaake12g222100
Deletion Chr2 27412181 27412182 1
Deletion Chr6 27921001 27934000 12999 OsKitaake06g253400
Deletion Chr4 30346910 30346914 4

Insertions: 6

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 6513269 6513271 1
Insertion Chr5 30099945 30099948 2
Insertion Chr6 17861161 17861164 2
Insertion Chr7 28157969 28157971 1
Insertion Chr5 17866340 17866344 3
Insertion Chr6 443 445 1

Inversions: 9

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr7 4664663 5658719 OsKitaake07g057800
Inversion Chr7 4664669 5658729 OsKitaake07g057800
Inversion Chr12 16761635 17502638
Inversion Chr12 16761695 17502726
Inversion Chr7 17428059 17580628
Inversion Chr7 17428065 17580642
Inversion Chr8 17947337 18585164
Inversion Chr4 25918890 25971001 2
Inversion Chr4 25918895 25971008 2

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr4 14394290 Chr1 26784385

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12451007	T-C	Hetero	INTERGENIC
SBS	Chr1	16763965	T-C	Hetero	INTERGENIC
SBS	Chr1	26215432	C-A	Homo	INTERGENIC
SBS	Chr2	5038553	C-T	Homo	INTERGENIC
SBS	Chr2	5630996	T-A	Homo	INTERGENIC
SBS	Chr2	12669742	T-C	Homo	INTERGENIC
SBS	Chr2	20207347	G-A	Hetero	INTERGENIC
SBS	Chr3	6679633	G-A	Homo	INTERGENIC
SBS	Chr3	15346084	T-C	Hetero	INTERGENIC
SBS	Chr3	25065704	C-T	Homo	INTERGENIC
SBS	Chr3	30488364	C-G	Hetero	INTERGENIC
SBS	Chr3	30488373	C-T	Hetero	INTERGENIC
SBS	Chr3	35957182	A-T	Hetero	INTERGENIC
SBS	Chr3	36850645	C-T	Hetero	INTERGENIC
SBS	Chr4	5015930	C-A	Hetero	INTERGENIC
SBS	Chr4	8096672	C-G	Hetero	INTERGENIC
SBS	Chr4	11199685	G-A	Hetero	INTERGENIC
SBS	Chr4	16435891	C-G	Hetero	INTERGENIC
SBS	Chr4	36293302	A-T	Hetero	INTRON
SBS	Chr5	9029861	C-T	Homo	INTERGENIC
SBS	Chr5	9912161	G-C	Hetero	INTERGENIC
SBS	Chr5	14219610	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake05g109000
SBS	Chr5	21750049	A-T	Hetero	INTERGENIC
SBS	Chr5	26131786	C-A	Hetero	UTR_5_PRIME
SBS	Chr5	29351383	G-A	Hetero	INTERGENIC
SBS	Chr6	5980670	C-T	Hetero	INTERGENIC
SBS	Chr6	22296129	A-G	Hetero	INTERGENIC
SBS	Chr6	23453577	T-C	Hetero	INTERGENIC
SBS	Chr7	17134096	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake07g140100
SBS	Chr7	18626462	G-A	Hetero	INTERGENIC
SBS	Chr7	23972006	T-G	Homo	UTR_5_PRIME
SBS	Chr7	25002096	C-A	Homo	INTERGENIC
SBS	Chr8	7120573	G-A	Hetero	INTERGENIC
SBS	Chr8	7213195	C-T	Hetero	INTERGENIC
SBS	Chr9	5270917	A-G	Homo	INTERGENIC
SBS	Chr9	8922190	G-T	Homo	INTERGENIC
SBS	Chr10	13049725	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake10g079400
SBS	Chr10	19763119	C-T	Hetero	INTERGENIC
SBS	Chr11	7319040	G-A	Hetero	INTERGENIC
SBS	Chr11	7319041	T-A	Hetero	INTERGENIC
SBS	Chr12	6938321	G-A	Hetero	INTERGENIC
SBS	Chr12	11891238	G-A	Hetero	INTERGENIC
SBS	Chr12	14092856	A-C	Hetero	INTERGENIC
SBS	Chr12	15220558	G-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr3	1767693	1767704	11
Deletion	Chr3	3672706	3672709	3
Deletion	Chr1	5837825	5837826	1
Deletion	Chr9	9099520	9099523	3	OsKitaake09g053200
Deletion	Chr9	10190548	10190557	9
Deletion	Chr1	11727091	11727096	5
Deletion	Chr6	12379167	12379252	85
Deletion	Chr1	17412223	17412224	1
Deletion	Chr11	17602827	17602828	1
Deletion	Chr7	18630746	18630748	2
Deletion	Chr7	20149316	20149319	3	OsKitaake07g165400
Deletion	Chr9	20939107	20939109	2
Deletion	Chr4	24461001	24474000	12999
Deletion	Chr1	25835642	25835651	9
Deletion	Chr8	25865744	25865748	4	OsKitaake08g205500
Deletion	Chr12	26720001	26734000	13999	OsKitaake12g222100
Deletion	Chr2	27412181	27412182	1
Deletion	Chr6	27921001	27934000	12999	OsKitaake06g253400
Deletion	Chr4	30346910	30346914	4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	4664663	5658719	OsKitaake07g057800
Inversion	Chr7	4664669	5658729	OsKitaake07g057800
Inversion	Chr12	16761635	17502638
Inversion	Chr12	16761695	17502726
Inversion	Chr7	17428059	17580628
Inversion	Chr7	17428065	17580642
Inversion	Chr8	17947337	18585164
Inversion	Chr4	25918890	25971001	2
Inversion	Chr4	25918895	25971008	2

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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