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Mutant Information

Mutant Name	FN1453-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1453-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) = Low (Between 25% and 75%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 34

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	20929093	G-C	HET	INTERGENIC
SBS	Chr1	40873408	G-T	HOMO	INTERGENIC
SBS	Chr10	13003509	G-A	HOMO	INTERGENIC
SBS	Chr10	5384461	G-A	HOMO	INTERGENIC
SBS	Chr11	20535821	T-A	HOMO	STOP_GAINED	LOC_Os11g35050
SBS	Chr11	704196	A-C	HOMO	INTERGENIC
SBS	Chr12	13114755	G-A	HET	INTERGENIC
SBS	Chr12	14870079	A-C	HET	UTR_5_PRIME
SBS	Chr2	11456166	T-C	HOMO	SYNONYMOUS_CODING
SBS	Chr2	15820171	G-A	HOMO	INTRON
SBS	Chr3	26900382	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os03g47570
SBS	Chr4	17450760	C-T	HET	INTERGENIC
SBS	Chr4	30864825	T-C	HET	INTERGENIC
SBS	Chr4	32465768	G-A	HET	SYNONYMOUS_CODING
SBS	Chr4	3945472	G-T	HET	INTRON
SBS	Chr4	4524447	T-C	HET	INTERGENIC
SBS	Chr4	9516698	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os04g17390
SBS	Chr5	17161912	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os05g29690
SBS	Chr5	23544427	T-A	HET	INTERGENIC
SBS	Chr5	5689295	G-A	HOMO	INTRON
SBS	Chr5	8353111	C-T	HET	SYNONYMOUS_CODING
SBS	Chr6	19457744	C-T	HET	INTRON
SBS	Chr6	9047360	C-A	HOMO	INTERGENIC
SBS	Chr7	16206027	G-C	HOMO	INTERGENIC
SBS	Chr7	20775089	C-T	HOMO	INTERGENIC
SBS	Chr8	11707020	T-A	HOMO	INTRON
SBS	Chr8	19555953	G-A	HET	INTERGENIC
SBS	Chr8	20693617	G-A	HET	INTERGENIC
SBS	Chr8	3431886	G-A	HOMO	UTR_3_PRIME
SBS	Chr8	5213599	T-G	HOMO	INTERGENIC
SBS	Chr8	6586013	G-A	HET	INTERGENIC
SBS	Chr8	7055972	A-T	HOMO	INTRON
SBS	Chr8	7854250	C-T	HOMO	INTERGENIC
SBS	Chr9	655958	C-T	HET	INTERGENIC

Deletions: 34

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	860017	860212	195
Deletion	Chr8	1642941	1642942	1	LOC_Os08g03510
Deletion	Chr7	2354095	2354125	30
Deletion	Chr4	2381584	2381604	20	LOC_Os04g04940
Deletion	Chr8	2474849	2474868	19
Deletion	Chr9	3035001	3086000	51000	4
Deletion	Chr12	3552459	3552474	15	LOC_Os12g07220
Deletion	Chr1	3963075	3963080	5
Deletion	Chr11	4607464	4607468	4
Deletion	Chr6	4679019	4679030	11	LOC_Os06g09310
Deletion	Chr1	5429448	5429460	12	LOC_Os01g10320
Deletion	Chr12	6240379	6531897	291518	38
Deletion	Chr9	6627660	6627664	4
Deletion	Chr7	7684423	7684438	15
Deletion	Chr4	9622560	9625360	2800
Deletion	Chr10	9766701	9766703	2
Deletion	Chr6	10725535	10725544	9
Deletion	Chr1	14001415	14001424	9	LOC_Os01g24860
Deletion	Chr3	14464197	14464200	3
Deletion	Chr4	14978433	14978435	2	LOC_Os04g25810
Deletion	Chr10	16122579	16122585	6
Deletion	Chr5	17022417	17022421	4
Deletion	Chr5	17477148	17477155	7
Deletion	Chr9	18372837	18372842	5
Deletion	Chr5	21870125	21870136	11	LOC_Os05g37380
Deletion	Chr8	22415153	22415154	1
Deletion	Chr8	24747742	24747757	15
Deletion	Chr12	25065615	25065631	16	LOC_Os12g40510
Deletion	Chr7	26163743	26163750	7	LOC_Os07g43720
Deletion	Chr11	27712164	27712174	10
Deletion	Chr5	28989315	28989317	2
Deletion	Chr1	30528066	30528076	10
Deletion	Chr1	30903405	30903441	36
Deletion	Chr3	35717958	35717986	28

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr10	14416901	14416901	1
Insertion	Chr12	1185381	1185381	1
Insertion	Chr2	28081723	28081724	2	LOC_Os02g46080
Insertion	Chr5	22811248	22811249	2
Insertion	Chr8	7934523	7934523	1

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	15463446	16754506	LOC_Os11g28950

Translocations: 1

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	8525857	Chr10	22976148

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