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Mutant Information

Mutant Name	FN1529-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1529-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal 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: 52

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1970544	T-C	HET	INTERGENIC
SBS	Chr1	21079068	C-A	Homo	INTRON
SBS	Chr1	28477033	C-T	HET	STOP_GAINED	LOC_Os01g49500
SBS	Chr1	3970267	C-G	HET	INTERGENIC
SBS	Chr1	7643275	C-T	Homo	INTERGENIC
SBS	Chr10	11064676	T-C	HET	INTERGENIC
SBS	Chr10	13170475	A-C	HET	INTERGENIC
SBS	Chr10	7209217	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os10g13350
SBS	Chr11	11700557	T-C	HET	INTRON
SBS	Chr11	1459410	T-C	HET	INTRON
SBS	Chr11	2286576	T-C	HET	INTERGENIC
SBS	Chr11	26598328	G-A	HET	INTRON
SBS	Chr11	2663970	C-T	HET	INTERGENIC
SBS	Chr11	7218605	C-T	HET	INTERGENIC
SBS	Chr11	7391556	G-T	HET	INTERGENIC
SBS	Chr12	15473078	C-G	HET	UTR_3_PRIME
SBS	Chr12	22013071	A-C	HET	INTERGENIC
SBS	Chr12	4806973	C-T	HET	INTERGENIC
SBS	Chr12	5067184	G-C	Homo	INTRON
SBS	Chr12	8806148	C-T	Homo	INTRON
SBS	Chr2	14549956	C-T	HET	INTERGENIC
SBS	Chr2	24162610	A-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os02g39950
SBS	Chr2	30379228	T-C	Homo	INTERGENIC
SBS	Chr3	14646876	G-A	HET	SYNONYMOUS_CODING
SBS	Chr3	19751257	C-T	Homo	INTERGENIC
SBS	Chr3	20963787	C-T	HET	INTERGENIC
SBS	Chr3	22843833	C-A	Homo	INTERGENIC
SBS	Chr3	33122697	C-T	Homo	INTERGENIC
SBS	Chr4	26826213	A-G	HET	INTERGENIC
SBS	Chr4	416537	G-A	HET	INTERGENIC
SBS	Chr4	8035996	C-T	Homo	SYNONYMOUS_CODING
SBS	Chr4	8035997	A-T	Homo	STOP_GAINED	LOC_Os04g14340
SBS	Chr4	8035998	A-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os04g14340
SBS	Chr5	20117245	A-G	Homo	INTERGENIC
SBS	Chr5	28775760	T-G	Homo	INTRON
SBS	Chr5	29409129	C-T	Homo	INTERGENIC
SBS	Chr6	27585612	G-A	Homo	SPLICE_SITE_REGION
SBS	Chr6	28358756	A-T	HET	INTERGENIC
SBS	Chr7	12097844	G-A	HET	INTRON
SBS	Chr7	21725808	G-C	HET	SYNONYMOUS_CODING
SBS	Chr7	29623321	T-C	HET	SPLICE_SITE_REGION
SBS	Chr7	6144705	C-T	HET	INTERGENIC
SBS	Chr7	6540267	A-G	HET	INTERGENIC
SBS	Chr8	1033578	A-C	HET	INTERGENIC
SBS	Chr8	15553662	A-G	HET	INTERGENIC
SBS	Chr8	15799798	C-A	HET	INTERGENIC
SBS	Chr8	18299962	T-C	HET	INTERGENIC
SBS	Chr8	21010455	A-C	Homo	INTERGENIC
SBS	Chr8	27582403	A-G	HET	INTERGENIC
SBS	Chr8	3804896	G-A	HET	INTERGENIC
SBS	Chr9	1500341	T-G	HET	INTERGENIC
SBS	Chr9	22924532	G-C	Homo	INTRON

Deletions: 43

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr1	413858	413878	20
Deletion	Chr11	1435405	1435416	11
Deletion	Chr10	1506208	1506209	1
Deletion	Chr12	2127317	2127318	1
Deletion	Chr1	2305903	2305904	1
Deletion	Chr6	2578162	2578167	5
Deletion	Chr11	5590366	5590371	5
Deletion	Chr8	7384957	7384974	17
Deletion	Chr9	8493339	8493340	1
Deletion	Chr5	8630461	8630464	3	LOC_Os05g15210
Deletion	Chr5	9259119	9259127	8
Deletion	Chr7	9489842	9489846	4
Deletion	Chr2	9649984	9650413	429
Deletion	Chr7	11345382	11345385	3	LOC_Os07g19170
Deletion	Chr11	11477408	11477410	2	LOC_Os11g19940
Deletion	Chr11	12121961	12121962	1
Deletion	Chr10	13361421	13361439	18	LOC_Os10g25780
Deletion	Chr10	13658286	13668908	10622	2
Deletion	Chr11	13880818	13880820	2
Deletion	Chr2	15009291	15018796	9505
Deletion	Chr10	15315965	15315967	2	LOC_Os10g29490
Deletion	Chr9	15812027	15812033	6
Deletion	Chr7	17733164	17733175	11	LOC_Os07g30060
Deletion	Chr2	17870515	17870532	17	LOC_Os02g30090
Deletion	Chr9	18752143	18752180	37	2
Deletion	Chr3	18816746	18816750	4	LOC_Os03g32900
Deletion	Chr10	18899571	18899572	1
Deletion	Chr2	19103820	19103825	5
Deletion	Chr12	19913697	19913702	5
Deletion	Chr7	20125905	20125909	4
Deletion	Chr10	22659914	22659918	4
Deletion	Chr2	23182744	23182749	5
Deletion	Chr1	24732405	24732411	6
Deletion	Chr2	25842722	25842726	4	LOC_Os02g42950
Deletion	Chr2	26764132	26764137	5
Deletion	Chr4	26774142	26774143	1
Deletion	Chr2	28380611	28380617	6
Deletion	Chr7	28451000	28451001	1	LOC_Os07g47580
Deletion	Chr2	28801392	28801404	12
Deletion	Chr2	28966415	28966416	1
Deletion	Chr1	32328614	32328616	2	LOC_Os01g56140
Deletion	Chr4	33392453	33392461	8
Deletion	Chr1	40717859	40717867	8

Insertions: 14

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr11	20238549	20238549	1
Insertion	Chr11	5985020	5985021	2
Insertion	Chr12	14486111	14486126	16
Insertion	Chr12	20042193	20042194	2
Insertion	Chr2	11902042	11902047	6	LOC_Os02g20200
Insertion	Chr2	31349834	31349834	1
Insertion	Chr3	30202574	30202575	2
Insertion	Chr4	2200431	2200432	2
Insertion	Chr4	2317867	2317869	3
Insertion	Chr5	16375533	16375534	2
Insertion	Chr6	7372429	7372429	1
Insertion	Chr7	12555072	12555073	2
Insertion	Chr8	24721344	24721345	2
Insertion	Chr9	4721127	4721128	2

No Inversion

No Translocation

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