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Mutant Information

Mutant Name	FN1401-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1401-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
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 41

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15793169	T-G	HET	INTRON
SBS	Chr1	20422844	A-G	HET	INTERGENIC
SBS	Chr1	29542577	G-A	HOMO	INTERGENIC
SBS	Chr1	42387465	A-C	HET	INTERGENIC
SBS	Chr1	7764751	C-T	HET	INTRON
SBS	Chr1	8838973	G-T	HET	INTERGENIC
SBS	Chr10	11609624	G-A	HET	INTERGENIC
SBS	Chr10	15622797	C-T	HET	INTRON
SBS	Chr10	7911218	G-A	HOMO	INTERGENIC
SBS	Chr11	12887052	C-A	HET	INTRON
SBS	Chr11	14194469	C-A	HET	INTERGENIC
SBS	Chr12	11842498	A-C	HET	INTERGENIC
SBS	Chr12	14534124	T-A	HET	INTERGENIC
SBS	Chr12	18112263	G-A	HET	UTR_5_PRIME
SBS	Chr12	20832527	G-C	HET	INTERGENIC
SBS	Chr12	24357293	C-G	HET	INTERGENIC
SBS	Chr12	3463855	G-T	HET	INTERGENIC
SBS	Chr12	7406267	A-T	HET	INTERGENIC
SBS	Chr2	23358219	G-A	HET	SYNONYMOUS_CODING
SBS	Chr2	30694258	T-C	HET	INTERGENIC
SBS	Chr2	6579241	T-C	HOMO	INTRON
SBS	Chr3	15987267	G-A	HET	INTRON
SBS	Chr3	19322814	C-A	HET	INTERGENIC
SBS	Chr3	28552763	C-A	HET	INTRON
SBS	Chr4	34182348	C-A	HET	SYNONYMOUS_CODING
SBS	Chr4	4712661	G-A	HOMO	STOP_GAINED	LOC_Os04g08680
SBS	Chr5	13737455	T-C	HET	INTRON
SBS	Chr5	27224063	C-T	HET	INTERGENIC
SBS	Chr6	5380373	A-T	HET	INTERGENIC
SBS	Chr7	11732228	T-A	HET	INTERGENIC
SBS	Chr7	14116398	T-C	HET	INTERGENIC
SBS	Chr7	6200765	A-G	HET	INTERGENIC
SBS	Chr8	18427223	C-T	HET	INTRON
SBS	Chr8	20498493	A-G	HET	INTERGENIC
SBS	Chr8	7482310	A-T	HOMO	INTERGENIC
SBS	Chr9	11826843	C-T	HET	SYNONYMOUS_CODING
SBS	Chr9	16373493	G-A	HET	INTERGENIC
SBS	Chr9	22236491	C-A	HET	INTERGENIC
SBS	Chr9	4107808	C-G	HET	INTERGENIC
SBS	Chr9	7129711	C-T	HET	INTERGENIC
SBS	Chr9	9725512	C-G	HET	SYNONYMOUS_CODING

Deletions: 28

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr7	47293	47300	7
Deletion	Chr10	1511488	1511493	5
Deletion	Chr3	3681757	3681766	9
Deletion	Chr10	4914780	4914785	5	LOC_Os10g09090
Deletion	Chr7	7599067	7599068	1
Deletion	Chr9	9652531	9652546	15
Deletion	Chr8	9704316	9704328	12
Deletion	Chr11	10952837	10952838	1
Deletion	Chr4	12227093	12227096	3
Deletion	Chr11	15696221	15696223	2
Deletion	Chr3	16305754	16305760	6
Deletion	Chr7	18737022	18737029	7
Deletion	Chr11	19991888	19994170	2282	LOC_Os11g34150
Deletion	Chr9	21316466	21316467	1
Deletion	Chr11	21489746	21489761	15	LOC_Os11g36440
Deletion	Chr2	21684090	21686066	1976
Deletion	Chr12	21772001	21942000	170000	16
Deletion	Chr2	21884866	21884869	3
Deletion	Chr10	22210412	22210436	24
Deletion	Chr2	23073992	23073993	1
Deletion	Chr1	24932604	24932605	1
Deletion	Chr7	25928215	25928219	4
Deletion	Chr1	26270394	26270395	1
Deletion	Chr3	26424242	26424243	1
Deletion	Chr1	26835621	26835637	16
Deletion	Chr8	27625588	27625590	2
Deletion	Chr4	29876670	29876683	13
Deletion	Chr2	35222154	35222162	8	LOC_Os02g57480

Insertions: 6

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr1	31904143	31904143	1
Insertion	Chr3	9923615	9923615	1
Insertion	Chr4	22388098	22388098	1
Insertion	Chr6	28897523	28897523	1
Insertion	Chr7	19025978	19025979	2
Insertion	Chr8	20131861	20131862	2

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	12374919	15553099	2
Inversion	Chr12	12859523	13699569	LOC_Os12g24080

No Translocation

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