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Mutant Information

Mutant Name	FN3840-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN3840-S Alignment File
Seed Availability	Yes [Order Seeds]

Variant Information

Single base substitutions: 37

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 5113609 A-G Hetero INTRON
SBS Chr1 34135719 A-T Hetero INTERGENIC
SBS Chr2 1797131 A-G Hetero INTRON
SBS Chr2 15574078 C-A Hetero INTERGENIC
SBS Chr2 31230975 C-T Hetero INTERGENIC
SBS Chr2 33724096 A-G Hetero INTRON
SBS Chr2 35662028 A-C Hetero UTR_3_PRIME
SBS Chr3 31347847 C-G Hetero SYNONYMOUS_CODING
SBS Chr4 25161412 C-T Hetero INTRON
SBS Chr5 17034914 G-T Hetero INTERGENIC
SBS Chr6 15444984 C-T Hetero INTERGENIC
SBS Chr6 21377685 G-A Hetero INTERGENIC
SBS Chr6 25684385 G-A Hetero INTERGENIC
SBS Chr7 4148929 C-T Hetero INTERGENIC
SBS Chr7 5992225 G-A Hetero INTERGENIC
SBS Chr7 8316640 C-T Homo INTERGENIC
SBS Chr7 12968553 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake07g114700
SBS Chr7 16117533 A-G Hetero INTERGENIC
SBS Chr7 20166644 G-A Hetero INTERGENIC
SBS Chr7 24776708 G-A Hetero INTERGENIC
SBS Chr7 26676371 G-T Homo INTERGENIC
SBS Chr7 28851334 A-C Homo NON_SYNONYMOUS_CODING OsKitaake07g275400
SBS Chr8 8589679 G-A Hetero INTERGENIC
SBS Chr8 14765058 C-T Hetero INTERGENIC
SBS Chr8 16750641 G-A Hetero INTERGENIC
SBS Chr9 4590211 C-T Hetero INTERGENIC
SBS Chr9 10746500 A-G Hetero INTRON
SBS Chr10 916048 A-G Hetero INTERGENIC
SBS Chr10 13439415 C-T Hetero INTERGENIC
SBS Chr10 16338919 T-C Hetero INTERGENIC
SBS Chr10 18319858 G-A Hetero INTERGENIC
SBS Chr10 23995387 G-A Hetero INTERGENIC
SBS Chr11 18138780 T-C Hetero INTERGENIC
SBS Chr11 19358284 G-A Homo NON_SYNONYMOUS_CODING OsKitaake11g150675
SBS Chr12 7098208 A-G Hetero INTERGENIC
SBS Chr12 22638060 C-A Hetero INTERGENIC
SBS Chr12 27023485 A-C Hetero INTERGENIC

Deletions: 23

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr2 3866904 3866914 10 OsKitaake02g055700
Deletion Chr1 4040901 4040903 2
Deletion Chr9 6732371 6732380 9
Deletion Chr12 7861222 7861225 3
Deletion Chr11 7923731 7923733 2
Deletion Chr10 10603838 10603841 3
Deletion Chr11 10991001 11011000 19999
Deletion Chr5 11098105 11098126 21
Deletion Chr7 11298409 11298411 2
Deletion Chr1 13323931 13323944 13
Deletion Chr7 14314102 14314104 2
Deletion Chr10 14332132 14332144 12
Deletion Chr11 19352302 19352306 4
Deletion Chr12 21191210 21191216 6
Deletion Chr1 23324282 23324283 1 OsKitaake01g223000
Deletion Chr8 25697207 25697215 8
Deletion Chr7 26491431 26491436 5 OsKitaake07g244800
Deletion Chr1 26566702 26566705 3
Deletion Chr2 26774161 26774163 2
Deletion Chr4 27824458 27824462 4
Deletion Chr2 34168022 34168023 1
Deletion Chr2 34687869 34687875 6
Deletion Chr4 34720792 34720828 36

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 8493493 8493496 2
Insertion Chr4 3803602 3803605 2
Insertion Chr11 29606741 29606744 2

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr7 19565006 19845469 OsKitaake07g162000
Inversion Chr7 19565011 19845476 OsKitaake07g162000
Inversion Chr3 31195524 31462146 2
Inversion Chr3 31197611 31462145 OsKitaake03g331500

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 906129 Chr2 12025742 OsKitaake02g136300
Translocation Chr9 909029 Chr2 12025751 OsKitaake02g136300

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	5113609	A-G	Hetero	INTRON
SBS	Chr1	34135719	A-T	Hetero	INTERGENIC
SBS	Chr2	1797131	A-G	Hetero	INTRON
SBS	Chr2	15574078	C-A	Hetero	INTERGENIC
SBS	Chr2	31230975	C-T	Hetero	INTERGENIC
SBS	Chr2	33724096	A-G	Hetero	INTRON
SBS	Chr2	35662028	A-C	Hetero	UTR_3_PRIME
SBS	Chr3	31347847	C-G	Hetero	SYNONYMOUS_CODING
SBS	Chr4	25161412	C-T	Hetero	INTRON
SBS	Chr5	17034914	G-T	Hetero	INTERGENIC
SBS	Chr6	15444984	C-T	Hetero	INTERGENIC
SBS	Chr6	21377685	G-A	Hetero	INTERGENIC
SBS	Chr6	25684385	G-A	Hetero	INTERGENIC
SBS	Chr7	4148929	C-T	Hetero	INTERGENIC
SBS	Chr7	5992225	G-A	Hetero	INTERGENIC
SBS	Chr7	8316640	C-T	Homo	INTERGENIC
SBS	Chr7	12968553	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake07g114700
SBS	Chr7	16117533	A-G	Hetero	INTERGENIC
SBS	Chr7	20166644	G-A	Hetero	INTERGENIC
SBS	Chr7	24776708	G-A	Hetero	INTERGENIC
SBS	Chr7	26676371	G-T	Homo	INTERGENIC
SBS	Chr7	28851334	A-C	Homo	NON_SYNONYMOUS_CODING	OsKitaake07g275400
SBS	Chr8	8589679	G-A	Hetero	INTERGENIC
SBS	Chr8	14765058	C-T	Hetero	INTERGENIC
SBS	Chr8	16750641	G-A	Hetero	INTERGENIC
SBS	Chr9	4590211	C-T	Hetero	INTERGENIC
SBS	Chr9	10746500	A-G	Hetero	INTRON
SBS	Chr10	916048	A-G	Hetero	INTERGENIC
SBS	Chr10	13439415	C-T	Hetero	INTERGENIC
SBS	Chr10	16338919	T-C	Hetero	INTERGENIC
SBS	Chr10	18319858	G-A	Hetero	INTERGENIC
SBS	Chr10	23995387	G-A	Hetero	INTERGENIC
SBS	Chr11	18138780	T-C	Hetero	INTERGENIC
SBS	Chr11	19358284	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake11g150675
SBS	Chr12	7098208	A-G	Hetero	INTERGENIC
SBS	Chr12	22638060	C-A	Hetero	INTERGENIC
SBS	Chr12	27023485	A-C	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr2	3866904	3866914	10	OsKitaake02g055700
Deletion	Chr1	4040901	4040903	2
Deletion	Chr9	6732371	6732380	9
Deletion	Chr12	7861222	7861225	3
Deletion	Chr11	7923731	7923733	2
Deletion	Chr10	10603838	10603841	3
Deletion	Chr11	10991001	11011000	19999
Deletion	Chr5	11098105	11098126	21
Deletion	Chr7	11298409	11298411	2
Deletion	Chr1	13323931	13323944	13
Deletion	Chr7	14314102	14314104	2
Deletion	Chr10	14332132	14332144	12
Deletion	Chr11	19352302	19352306	4
Deletion	Chr12	21191210	21191216	6
Deletion	Chr1	23324282	23324283	1	OsKitaake01g223000
Deletion	Chr8	25697207	25697215	8
Deletion	Chr7	26491431	26491436	5	OsKitaake07g244800
Deletion	Chr1	26566702	26566705	3
Deletion	Chr2	26774161	26774163	2
Deletion	Chr4	27824458	27824462	4
Deletion	Chr2	34168022	34168023	1
Deletion	Chr2	34687869	34687875	6
Deletion	Chr4	34720792	34720828	36

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	19565006	19845469	OsKitaake07g162000
Inversion	Chr7	19565011	19845476	OsKitaake07g162000
Inversion	Chr3	31195524	31462146	2
Inversion	Chr3	31197611	31462145	OsKitaake03g331500

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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