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Mutant Information

Mutant Name	FN1553-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1553-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) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 31

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	10512649	C-T	HET	INTRON
SBS	Chr1	5448932	C-A	HET	INTERGENIC
SBS	Chr10	13235750	A-G	HET	INTRON
SBS	Chr11	20999563	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os11g35770
SBS	Chr12	24263640	C-G	HET	INTERGENIC
SBS	Chr12	2551406	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os12g05560
SBS	Chr2	25064353	G-T	Homo	INTERGENIC
SBS	Chr2	25064354	G-T	Homo	INTERGENIC
SBS	Chr2	29342737	A-C	HET	INTRON
SBS	Chr2	30651489	A-T	Homo	INTRON
SBS	Chr3	10183167	C-T	HET	INTERGENIC
SBS	Chr3	10276577	A-G	HET	INTERGENIC
SBS	Chr3	11122753	T-A	HET	INTERGENIC
SBS	Chr3	33127137	C-A	Homo	INTERGENIC
SBS	Chr4	1605980	G-A	HET	SYNONYMOUS_CODING
SBS	Chr4	19618875	G-A	HET	INTERGENIC
SBS	Chr4	22328260	C-T	HET	INTERGENIC
SBS	Chr4	26663599	G-C	HET	INTERGENIC
SBS	Chr4	26666872	G-T	HET	INTRON
SBS	Chr4	26677187	A-T	HET	INTERGENIC
SBS	Chr4	29050388	G-T	HET	INTERGENIC
SBS	Chr5	940477	C-A	HET	START_GAINED	LOC_Os05g02670
SBS	Chr6	12318935	G-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os06g21330
SBS	Chr6	27601389	C-T	HET	UTR_3_PRIME
SBS	Chr7	18984209	A-T	Homo	INTERGENIC
SBS	Chr7	9487130	T-G	HET	INTERGENIC
SBS	Chr8	18541250	T-G	HET	INTERGENIC
SBS	Chr8	2280958	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g04570
SBS	Chr9	17474300	C-T	HET	INTERGENIC
SBS	Chr9	21155288	G-A	HET	INTERGENIC
SBS	Chr9	5123448	G-A	HET	INTERGENIC

Deletions: 39

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	1413308	1413310	2
Deletion	Chr1	1824244	1824251	7
Deletion	Chr1	2659930	2659931	1
Deletion	Chr1	3297909	3303582	5673	3
Deletion	Chr5	3976896	3977024	128
Deletion	Chr9	5181027	5181036	9
Deletion	Chr11	7044129	7044130	1
Deletion	Chr7	7253064	7253065	1
Deletion	Chr7	8120438	8120493	55	LOC_Os07g14250
Deletion	Chr3	9793778	9793795	17
Deletion	Chr3	11314341	11314349	8	LOC_Os03g20080
Deletion	Chr3	11487831	11487874	43
Deletion	Chr1	11800678	11800683	5
Deletion	Chr7	12167574	12167575	1
Deletion	Chr8	12219726	12219727	1
Deletion	Chr3	13415126	13415127	1
Deletion	Chr3	14212001	14247000	35000	2
Deletion	Chr8	14213281	14213284	3	LOC_Os08g23470
Deletion	Chr1	15014398	15014400	2
Deletion	Chr11	15741679	15741681	2	LOC_Os11g27360
Deletion	Chr12	17381962	17381964	2
Deletion	Chr1	18437591	18437592	1
Deletion	Chr4	18795081	18795084	3	LOC_Os04g31420
Deletion	Chr4	19617817	19617830	13
Deletion	Chr1	20675783	20675784	1
Deletion	Chr2	20822105	20822124	19
Deletion	Chr7	22427443	22427450	7
Deletion	Chr3	23099209	23099213	4
Deletion	Chr11	23560430	23560434	4
Deletion	Chr5	23619505	23619524	19
Deletion	Chr8	23806979	23806981	2
Deletion	Chr5	24504731	24504740	9	LOC_Os05g41840
Deletion	Chr4	25456844	25456846	2	LOC_Os04g43020
Deletion	Chr2	25610893	25610894	1
Deletion	Chr4	25691245	25691246	1
Deletion	Chr8	25786856	25786860	4
Deletion	Chr5	28083260	28083261	1
Deletion	Chr2	34540458	34540466	8
Deletion	Chr1	37349333	37349334	1

Insertions: 14

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	18727838	18727838	1
Insertion	Chr1	23885835	23885835	1
Insertion	Chr1	26513763	26513764	2
Insertion	Chr11	2043359	2043364	6
Insertion	Chr2	19232817	19232818	2
Insertion	Chr2	33811683	33811751	69	LOC_Os02g55200
Insertion	Chr3	12930149	12930150	2	LOC_Os03g22510
Insertion	Chr3	30330711	30330711	1
Insertion	Chr6	10435328	10435359	32
Insertion	Chr6	1338435	1338462	28
Insertion	Chr7	18835045	18835045	1
Insertion	Chr7	23041080	23041080	1
Insertion	Chr9	10580630	10580631	2
Insertion	Chr9	8986295	8986297	3

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	5196036	5680508

No Translocation

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