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Mutant Information

Mutant Name	FN1241-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1241-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) = Low (Between 25% and 74%) 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 11630424 C-T Homo INTERGENIC
SBS Chr1 32024967 C-T Homo INTERGENIC
SBS Chr1 32622064 G-C Homo INTERGENIC
SBS Chr2 4389249 T-A Homo UTR_5_PRIME
SBS Chr2 9573619 T-A Hetero INTERGENIC
SBS Chr2 9573620 T-A Hetero INTERGENIC
SBS Chr2 12657688 C-T Hetero INTERGENIC
SBS Chr3 21574958 C-T Hetero INTERGENIC
SBS Chr3 34911861 T-C Hetero INTRON
SBS Chr4 6483624 G-C Hetero INTERGENIC
SBS Chr4 10633746 C-T Hetero INTERGENIC
SBS Chr4 14017493 T-A Hetero INTERGENIC
SBS Chr4 14764183 G-A Hetero INTERGENIC
SBS Chr5 14469437 A-T Hetero INTERGENIC
SBS Chr5 17215383 A-G Homo INTERGENIC
SBS Chr6 9447678 T-C Hetero INTERGENIC
SBS Chr6 13714165 C-T Hetero INTERGENIC
SBS Chr6 13714170 G-T Hetero INTERGENIC
SBS Chr7 6533843 T-G Homo INTERGENIC
SBS Chr7 14483693 C-T Hetero INTERGENIC
SBS Chr8 22503344 T-A Homo NON_SYNONYMOUS_CODING OsKitaake08g172100
SBS Chr8 25153924 G-A Homo INTRON
SBS Chr10 12673273 T-A Homo INTERGENIC
SBS Chr12 13155515 G-A Homo INTERGENIC
SBS Chr12 16363494 A-T Homo INTERGENIC

Deletions: 13

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 5529098 5529100 2
Deletion Chr2 6626193 6626206 13
Deletion Chr3 9448067 9448068 1
Deletion Chr12 14557616 14557617 1
Deletion Chr2 15116559 15116560 1 OsKitaake02g158400
Deletion Chr6 20019590 20019592 2
Deletion Chr5 20828399 20828401 2
Deletion Chr5 21889591 21889595 4
Deletion Chr7 24557565 24557582 17
Deletion Chr7 25728098 25728106 8
Deletion Chr6 26070419 26070426 7
Deletion Chr2 26865429 26865430 1
Deletion Chr1 38758011 38758023 12 OsKitaake01g414800

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr11 24877260 24877263 2
Insertion Chr8 9965568 9965570 1

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 3473336 3685442 OsKitaake04g018100

Translocations: 4

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr8 15971370 Chr3 34923879
Translocation Chr8 15971372 Chr3 34929718
Translocation Chr8 27634953 Chr5 4245904 OsKitaake05g050000
Translocation Chr8 27634975 Chr5 4245472

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	11630424	C-T	Homo	INTERGENIC
SBS	Chr1	32024967	C-T	Homo	INTERGENIC
SBS	Chr1	32622064	G-C	Homo	INTERGENIC
SBS	Chr2	4389249	T-A	Homo	UTR_5_PRIME
SBS	Chr2	9573619	T-A	Hetero	INTERGENIC
SBS	Chr2	9573620	T-A	Hetero	INTERGENIC
SBS	Chr2	12657688	C-T	Hetero	INTERGENIC
SBS	Chr3	21574958	C-T	Hetero	INTERGENIC
SBS	Chr3	34911861	T-C	Hetero	INTRON
SBS	Chr4	6483624	G-C	Hetero	INTERGENIC
SBS	Chr4	10633746	C-T	Hetero	INTERGENIC
SBS	Chr4	14017493	T-A	Hetero	INTERGENIC
SBS	Chr4	14764183	G-A	Hetero	INTERGENIC
SBS	Chr5	14469437	A-T	Hetero	INTERGENIC
SBS	Chr5	17215383	A-G	Homo	INTERGENIC
SBS	Chr6	9447678	T-C	Hetero	INTERGENIC
SBS	Chr6	13714165	C-T	Hetero	INTERGENIC
SBS	Chr6	13714170	G-T	Hetero	INTERGENIC
SBS	Chr7	6533843	T-G	Homo	INTERGENIC
SBS	Chr7	14483693	C-T	Hetero	INTERGENIC
SBS	Chr8	22503344	T-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake08g172100
SBS	Chr8	25153924	G-A	Homo	INTRON
SBS	Chr10	12673273	T-A	Homo	INTERGENIC
SBS	Chr12	13155515	G-A	Homo	INTERGENIC
SBS	Chr12	16363494	A-T	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	5529098	5529100	2
Deletion	Chr2	6626193	6626206	13
Deletion	Chr3	9448067	9448068	1
Deletion	Chr12	14557616	14557617	1
Deletion	Chr2	15116559	15116560	1	OsKitaake02g158400
Deletion	Chr6	20019590	20019592	2
Deletion	Chr5	20828399	20828401	2
Deletion	Chr5	21889591	21889595	4
Deletion	Chr7	24557565	24557582	17
Deletion	Chr7	25728098	25728106	8
Deletion	Chr6	26070419	26070426	7
Deletion	Chr2	26865429	26865430	1
Deletion	Chr1	38758011	38758023	12	OsKitaake01g414800

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	3473336	3685442	OsKitaake04g018100

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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