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Mutant Information

Mutant Name	FN1559-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1559-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal 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
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 38

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10051794	T-C	HET	INTERGENIC
SBS	Chr1	13683846	A-T	HET	INTERGENIC
SBS	Chr1	16601881	T-C	HET	INTERGENIC
SBS	Chr1	17610435	G-A	HET	INTERGENIC
SBS	Chr1	17610446	G-A	HET	INTERGENIC
SBS	Chr1	24338155	G-A	HET	INTERGENIC
SBS	Chr1	32817984	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os01g56820
SBS	Chr1	6378936	C-T	Homo	INTRON
SBS	Chr1	6378937	A-C	Homo	INTRON
SBS	Chr10	12587234	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g24520
SBS	Chr10	15468601	C-G	Homo	INTERGENIC
SBS	Chr10	26902	G-A	Homo	INTERGENIC
SBS	Chr10	3824825	T-A	HET	INTERGENIC
SBS	Chr10	9644226	A-G	HET	INTRON
SBS	Chr11	18944413	G-A	HET	INTERGENIC
SBS	Chr12	17145481	A-C	HET	INTERGENIC
SBS	Chr2	1580074	G-A	HET	INTERGENIC
SBS	Chr2	26304188	T-G	Homo	INTERGENIC
SBS	Chr2	29830175	T-C	HET	UTR_3_PRIME
SBS	Chr3	14127239	C-T	HET	SYNONYMOUS_CODING
SBS	Chr3	15413771	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os03g26960
SBS	Chr3	19272508	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os03g33700
SBS	Chr3	20481567	G-T	HET	INTERGENIC
SBS	Chr3	29025283	C-T	HET	INTERGENIC
SBS	Chr4	23624265	G-T	Homo	INTERGENIC
SBS	Chr4	3964304	A-C	Homo	INTERGENIC
SBS	Chr5	11477980	G-C	HET	INTERGENIC
SBS	Chr5	8664270	C-T	HET	INTERGENIC
SBS	Chr6	10202955	G-C	Homo	INTERGENIC
SBS	Chr6	14026068	C-A	Homo	INTERGENIC
SBS	Chr6	4343114	G-A	Homo	INTERGENIC
SBS	Chr6	938723	A-G	Homo	INTRON
SBS	Chr7	19044128	T-C	Homo	INTERGENIC
SBS	Chr7	19156138	C-T	Homo	INTERGENIC
SBS	Chr7	25649053	C-A	Homo	UTR_5_PRIME
SBS	Chr8	2725878	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g05240
SBS	Chr8	8807498	C-T	Homo	INTERGENIC
SBS	Chr9	8832951	T-G	HET	INTERGENIC

Deletions: 25

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	3503148	3503149	1
Deletion	Chr9	4349164	4349165	1
Deletion	Chr7	6864161	6864164	3
Deletion	Chr9	7614956	7614957	1
Deletion	Chr10	7668455	7668476	21
Deletion	Chr5	7929188	7929193	5
Deletion	Chr1	8744515	8744516	1
Deletion	Chr2	9418179	9418181	2
Deletion	Chr9	10471879	10472007	128
Deletion	Chr5	11225195	11225210	15	LOC_Os05g19310
Deletion	Chr11	11735399	11735404	5
Deletion	Chr2	12079171	12079172	1
Deletion	Chr3	13678381	13678390	9
Deletion	Chr1	14293372	14293390	18
Deletion	Chr6	14857211	14857212	1
Deletion	Chr11	16562250	16562254	4
Deletion	Chr12	17648776	17648790	14
Deletion	Chr10	18119507	18119512	5
Deletion	Chr4	23578503	23578505	2
Deletion	Chr6	23677324	23677325	1
Deletion	Chr12	23924680	23924682	2
Deletion	Chr6	24322010	24322028	18
Deletion	Chr11	24399163	24399168	5
Deletion	Chr5	25660375	25660377	2
Deletion	Chr1	38952881	38952895	14

Insertions: 11

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	20904982	20904983	2
Insertion	Chr1	26582459	26582460	2
Insertion	Chr12	3959845	3959846	2
Insertion	Chr2	23301094	23301094	1
Insertion	Chr3	30745490	30745490	1
Insertion	Chr5	11425184	11425184	1
Insertion	Chr5	12662134	12662134	1
Insertion	Chr5	29605817	29605852	36
Insertion	Chr5	5217207	5217240	34
Insertion	Chr5	531804	531833	30
Insertion	Chr7	3542988	3542988	1

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	2979479	3193048	2
Inversion	Chr9	7435641	11121071
Inversion	Chr9	7439012	11132047	2
Inversion	Chr6	13442360	13868415	2

No Translocation

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