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Mutant Information

Mutant Name	FN389-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN389-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Very Low (Below 24%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 44

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10361144	G-A	HET	INTERGENIC
SBS	Chr1	24757078	G-A	HOMO	INTRON
SBS	Chr1	25219404	A-G	HOMO	INTERGENIC
SBS	Chr1	27172883	C-A	HOMO	INTRON
SBS	Chr1	5990995	C-G	HET	NON_SYNONYMOUS_CODING	LOC_Os01g11170
SBS	Chr10	11892183	C-T	HET	INTERGENIC
SBS	Chr11	10974020	A-G	HET	INTRON
SBS	Chr11	17199702	A-G	HET	INTERGENIC
SBS	Chr11	18916858	T-C	HET	INTERGENIC
SBS	Chr11	1963973	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os11g04620
SBS	Chr11	4963855	G-A	HET	INTERGENIC
SBS	Chr11	5832180	C-T	HET	SYNONYMOUS_CODING
SBS	Chr11	6159728	C-T	HET	INTERGENIC
SBS	Chr11	9781411	T-A	HET	INTERGENIC
SBS	Chr12	11733740	C-T	HET	INTRON
SBS	Chr12	14673412	C-T	HET	INTERGENIC
SBS	Chr12	16096555	T-C	HET	INTRON
SBS	Chr12	9181290	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os12g16080
SBS	Chr12	9734314	A-G	HET	UTR_3_PRIME
SBS	Chr12	9736485	C-T	HET	INTERGENIC
SBS	Chr2	11458650	C-T	HET	SPLICE_SITE_DONOR	LOC_Os02g19620
SBS	Chr2	27699691	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os02g45520
SBS	Chr2	29247359	T-A	HET	INTERGENIC
SBS	Chr2	3885992	G-A	HET	INTERGENIC
SBS	Chr3	22401245	T-A	HET	INTERGENIC
SBS	Chr3	28970912	C-G	HET	INTRON
SBS	Chr3	31342394	C-T	HET	INTERGENIC
SBS	Chr3	32249801	G-C	HOMO	INTRON
SBS	Chr4	13064750	T-A	HOMO	INTERGENIC
SBS	Chr4	18655962	G-A	HET	UTR_5_PRIME
SBS	Chr4	31533820	T-A	HET	INTRON
SBS	Chr5	10137944	C-G	HET	INTERGENIC
SBS	Chr5	14264899	G-A	HET	INTERGENIC
SBS	Chr5	15001822	T-A	HET	INTERGENIC
SBS	Chr5	22476965	G-T	HET	INTERGENIC
SBS	Chr5	28043579	G-A	HET	INTERGENIC
SBS	Chr5	9890937	G-A	HET	INTERGENIC
SBS	Chr6	17186426	G-A	HOMO	INTERGENIC
SBS	Chr6	30319125	T-G	HOMO	INTERGENIC
SBS	Chr7	10490348	G-A	HET	INTERGENIC
SBS	Chr8	25614988	G-T	HET	INTRON
SBS	Chr8	5862173	C-A	HET	INTERGENIC
SBS	Chr8	5862175	C-T	HET	INTERGENIC
SBS	Chr9	7241057	G-T	HOMO	STOP_GAINED	LOC_Os09g12650

Deletions: 24

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr5	186912	186917	5	LOC_Os05g01270
Deletion	Chr4	522203	522205	2	LOC_Os04g01810
Deletion	Chr7	547547	547549	2
Deletion	Chr4	3502046	3502048	2
Deletion	Chr1	3587779	3587785	6	LOC_Os01g07510
Deletion	Chr11	5600949	5600956	7	LOC_Os11g10310
Deletion	Chr3	11859842	11859847	5
Deletion	Chr4	12115406	12115413	7
Deletion	Chr4	13428363	13428371	8
Deletion	Chr6	14204088	14204095	7
Deletion	Chr6	14231947	14231955	8
Deletion	Chr5	15387001	15937000	550000	86
Deletion	Chr5	16119546	16119567	21
Deletion	Chr5	16345770	16345783	13
Deletion	Chr11	18487241	18487265	24
Deletion	Chr9	22615814	22615815	1
Deletion	Chr12	24431615	24431617	2
Deletion	Chr6	24531836	24531837	1	LOC_Os06g41070
Deletion	Chr12	25783823	25783833	10
Deletion	Chr2	29764063	29764066	3	LOC_Os02g48620
Deletion	Chr3	30386058	30386059	1	LOC_Os03g52970
Deletion	Chr3	31340650	31340666	16
Deletion	Chr1	39532503	39578748	46245	7
Deletion	Chr1	41083517	41083528	11

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)
Insertion	Chr11	20774747	20774752	6
Insertion	Chr11	8764239	8764240	2
Insertion	Chr12	23551114	23551115	2
Insertion	Chr6	25007543	25007544	2
Insertion	Chr6	3696772	3696773	2

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr11	3394885	3680217	LOC_Os11g06910

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr11	5152576	Chr2	29247130
Translocation	Chr11	5154876	Chr2	29247094	LOC_Os11g09640
Translocation	Chr11	22578430	Chr8	3761938	LOC_Os11g38070

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