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Mutant Information

Mutant Name	FN1480-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1480-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: 25

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 7241937 T-A Hetero INTERGENIC
SBS Chr2 6457741 G-A Hetero INTERGENIC
SBS Chr3 28574601 G-A Homo INTERGENIC
SBS Chr3 30472912 G-T Hetero INTERGENIC
SBS Chr4 6366305 A-T Hetero SYNONYMOUS_CODING
SBS Chr4 10290140 T-A Hetero INTERGENIC
SBS Chr4 18360320 C-T Homo INTERGENIC
SBS Chr5 12757442 T-G Hetero INTERGENIC
SBS Chr5 14361702 C-T Hetero INTERGENIC
SBS Chr6 7148519 G-A Hetero INTRON
SBS Chr6 19813393 A-T Hetero INTERGENIC
SBS Chr7 24602509 G-A Hetero INTERGENIC
SBS Chr8 16111396 A-G Hetero INTERGENIC
SBS Chr8 18153147 A-T Hetero INTRON
SBS Chr8 18212230 G-A Hetero INTERGENIC
SBS Chr8 18474913 T-C Hetero INTERGENIC
SBS Chr8 26006002 A-T Hetero INTERGENIC
SBS Chr9 11630957 C-G Hetero NON_SYNONYMOUS_CODING OsKitaake09g073800
SBS Chr10 18755775 C-A Hetero INTERGENIC
SBS Chr11 483216 T-A Homo INTRON
SBS Chr11 483218 C-A Homo INTRON
SBS Chr11 2877340 T-C Hetero UTR_3_PRIME
SBS Chr11 10321999 C-T Hetero INTERGENIC
SBS Chr11 13141958 G-C Hetero INTERGENIC
SBS Chr12 23018552 C-T Homo INTRON

Deletions: 16

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 1368001 1383000 14999 OsKitaake05g017100
Deletion Chr3 1634929 1634935 6
Deletion Chr12 2513247 2513254 7
Deletion Chr10 4444363 4444364 1
Deletion Chr12 6926099 6926113 14
Deletion Chr8 9057001 9127000 69999 4
Deletion Chr2 9575233 9575236 3
Deletion Chr1 9638001 9662000 23999 2
Deletion Chr1 13462001 13474000 11999 OsKitaake01g156600
Deletion Chr12 19933620 19933622 2
Deletion Chr6 23840438 23840439 1
Deletion Chr6 27758153 27758160 7
Deletion Chr3 28000001 28010000 9999 OsKitaake03g289900
Deletion Chr7 29265418 29265530 112
Deletion Chr1 29416178 29416180 2
Deletion Chr1 42700001 42711000 10999

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 29181563 29181568 4
Insertion Chr10 8267973 8267982 8

Inversions: 8

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 8156373 8596353
Inversion Chr10 8563703 8596356
Inversion Chr11 10167635 10169378
Inversion Chr11 10167645 10169380
Inversion Chr6 15980333 16037221 OsKitaake06g154200
Inversion Chr1 24935145 25023381
Inversion Chr1 26976197 27214393 OsKitaake01g262001
Inversion Chr1 27184204 27214391 OsKitaake01g264600

Translocations: 7

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr11 5814358 Chr10 18090322 OsKitaake10g127403
Translocation Chr6 7421560 Chr1 38394934 OsKitaake06g096100
Translocation Chr10 18086328 Chr1 24935161
Translocation Chr10 18089689 Chr1 25023390
Translocation Chr10 18091415 Chr1 18995005
Translocation Chr6 21489585 Chr1 26976188 OsKitaake01g262001
Translocation Chr6 21489592 Chr1 26973076 OsKitaake01g262001

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	7241937	T-A	Hetero	INTERGENIC
SBS	Chr2	6457741	G-A	Hetero	INTERGENIC
SBS	Chr3	28574601	G-A	Homo	INTERGENIC
SBS	Chr3	30472912	G-T	Hetero	INTERGENIC
SBS	Chr4	6366305	A-T	Hetero	SYNONYMOUS_CODING
SBS	Chr4	10290140	T-A	Hetero	INTERGENIC
SBS	Chr4	18360320	C-T	Homo	INTERGENIC
SBS	Chr5	12757442	T-G	Hetero	INTERGENIC
SBS	Chr5	14361702	C-T	Hetero	INTERGENIC
SBS	Chr6	7148519	G-A	Hetero	INTRON
SBS	Chr6	19813393	A-T	Hetero	INTERGENIC
SBS	Chr7	24602509	G-A	Hetero	INTERGENIC
SBS	Chr8	16111396	A-G	Hetero	INTERGENIC
SBS	Chr8	18153147	A-T	Hetero	INTRON
SBS	Chr8	18212230	G-A	Hetero	INTERGENIC
SBS	Chr8	18474913	T-C	Hetero	INTERGENIC
SBS	Chr8	26006002	A-T	Hetero	INTERGENIC
SBS	Chr9	11630957	C-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake09g073800
SBS	Chr10	18755775	C-A	Hetero	INTERGENIC
SBS	Chr11	483216	T-A	Homo	INTRON
SBS	Chr11	483218	C-A	Homo	INTRON
SBS	Chr11	2877340	T-C	Hetero	UTR_3_PRIME
SBS	Chr11	10321999	C-T	Hetero	INTERGENIC
SBS	Chr11	13141958	G-C	Hetero	INTERGENIC
SBS	Chr12	23018552	C-T	Homo	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	1368001	1383000	14999	OsKitaake05g017100
Deletion	Chr3	1634929	1634935	6
Deletion	Chr12	2513247	2513254	7
Deletion	Chr10	4444363	4444364	1
Deletion	Chr12	6926099	6926113	14
Deletion	Chr8	9057001	9127000	69999	4
Deletion	Chr2	9575233	9575236	3
Deletion	Chr1	9638001	9662000	23999	2
Deletion	Chr1	13462001	13474000	11999	OsKitaake01g156600
Deletion	Chr12	19933620	19933622	2
Deletion	Chr6	23840438	23840439	1
Deletion	Chr6	27758153	27758160	7
Deletion	Chr3	28000001	28010000	9999	OsKitaake03g289900
Deletion	Chr7	29265418	29265530	112
Deletion	Chr1	29416178	29416180	2
Deletion	Chr1	42700001	42711000	10999

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	8156373	8596353
Inversion	Chr10	8563703	8596356
Inversion	Chr11	10167635	10169378
Inversion	Chr11	10167645	10169380
Inversion	Chr6	15980333	16037221	OsKitaake06g154200
Inversion	Chr1	24935145	25023381
Inversion	Chr1	26976197	27214393	OsKitaake01g262001
Inversion	Chr1	27184204	27214391	OsKitaake01g264600

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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