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Mutant Information

Mutant Name	FN1665-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1665-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: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: 36

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	16089838	T-A	HET	INTRON
SBS	Chr1	16089840	C-A	HET	INTRON
SBS	Chr1	23686120	C-T	HET	INTERGENIC
SBS	Chr1	25203049	T-A	HET	INTERGENIC
SBS	Chr1	4088199	T-C	HET	INTERGENIC
SBS	Chr1	8681983	G-A	HET	INTERGENIC
SBS	Chr11	19916994	T-C	HET	INTERGENIC
SBS	Chr11	26954608	A-C	HET	NON_SYNONYMOUS_CODING	LOC_Os11g44580
SBS	Chr12	21838571	T-A	HET	INTERGENIC
SBS	Chr12	2271277	G-T	Homo	INTERGENIC
SBS	Chr12	3739101	G-C	Homo	INTERGENIC
SBS	Chr2	20526845	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os02g34300
SBS	Chr2	26438071	C-G	Homo	INTERGENIC
SBS	Chr3	25981579	G-A	Homo	INTRON
SBS	Chr4	1371867	T-A	Homo	INTERGENIC
SBS	Chr4	28689390	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g48180
SBS	Chr4	627489	G-A	Homo	INTRON
SBS	Chr5	13406371	A-G	HET	INTRON
SBS	Chr5	29886601	T-A	Homo	INTRON
SBS	Chr5	3471914	A-T	Homo	INTERGENIC
SBS	Chr5	5527300	G-T	Homo	INTERGENIC
SBS	Chr6	16698171	T-C	HET	INTRON
SBS	Chr6	16934678	G-T	HET	INTRON
SBS	Chr6	24977175	T-A	Homo	INTRON
SBS	Chr6	7050124	T-C	HET	SYNONYMOUS_CODING
SBS	Chr7	10278506	T-A	Homo	INTERGENIC
SBS	Chr7	11317925	A-G	HET	INTERGENIC
SBS	Chr7	17965748	G-T	Homo	STOP_GAINED	LOC_Os07g30360
SBS	Chr7	21883411	G-A	HET	INTERGENIC
SBS	Chr7	22350225	C-T	HET	INTERGENIC
SBS	Chr7	5293781	C-T	Homo	NON_SYNONYMOUS_CODING	LOC_Os07g09940
SBS	Chr8	17462447	C-T	Homo	INTERGENIC
SBS	Chr8	19346982	C-T	HET	INTERGENIC
SBS	Chr8	8975213	A-C	Homo	INTERGENIC
SBS	Chr9	21407738	C-T	HET	INTERGENIC
SBS	Chr9	7197707	A-T	HET	INTERGENIC

Deletions: 36

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr12	116843	116858	15	LOC_Os12g01200
Deletion	Chr4	639892	639893	1	LOC_Os04g02030
Deletion	Chr7	1194231	1194236	5
Deletion	Chr12	1464001	1534000	70000	13
Deletion	Chr9	1926812	1926813	1
Deletion	Chr10	2165624	2165626	2
Deletion	Chr11	3584307	3584308	1
Deletion	Chr8	3586675	3586676	1
Deletion	Chr4	4455893	4455912	19
Deletion	Chr1	5626328	5626331	3
Deletion	Chr12	5906001	6520000	614000	94
Deletion	Chr9	6544883	6544895	12
Deletion	Chr4	7716593	7716604	11
Deletion	Chr1	7882546	7882553	7	LOC_Os01g14080
Deletion	Chr10	7991097	7991101	4
Deletion	Chr12	8314714	8314715	1
Deletion	Chr8	8889012	8889013	1
Deletion	Chr9	9305056	9305068	12
Deletion	Chr8	11247358	11247369	11
Deletion	Chr7	11859978	11859979	1
Deletion	Chr3	14088267	14088271	4
Deletion	Chr12	17167341	17167342	1
Deletion	Chr11	18808766	18808774	8
Deletion	Chr9	19297946	19297949	3
Deletion	Chr1	19751626	19751627	1	LOC_Os01g35660
Deletion	Chr1	22462127	22462128	1
Deletion	Chr2	24090639	24090645	6
Deletion	Chr11	24499001	24566000	67000	11
Deletion	Chr12	24971710	24971711	1
Deletion	Chr5	24986899	24986902	3
Deletion	Chr5	26304361	26304365	4	LOC_Os05g45340
Deletion	Chr2	28127751	28127752	1
Deletion	Chr1	28376017	28376021	4
Deletion	Chr4	30952523	30952531	8	LOC_Os04g52120
Deletion	Chr4	32470343	32470358	15
Deletion	Chr4	33935344	33935352	8

Insertions: 22

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	17956443	17956443	1
Insertion	Chr1	21313909	21313909	1
Insertion	Chr1	2410544	2410544	1
Insertion	Chr1	2504910	2504951	42
Insertion	Chr1	25730141	25730153	13	LOC_Os01g45330
Insertion	Chr1	29199100	29199101	2
Insertion	Chr1	6640664	6640673	10
Insertion	Chr1	8751109	8751114	6	LOC_Os01g15580
Insertion	Chr10	6722414	6722437	24
Insertion	Chr11	17890746	17890787	42
Insertion	Chr11	4866717	4866718	2	LOC_Os11g09140
Insertion	Chr2	4256994	4256995	2
Insertion	Chr3	1061044	1061055	12
Insertion	Chr3	1240278	1240278	1
Insertion	Chr3	1257473	1257474	2
Insertion	Chr3	921435	921477	43	LOC_Os03g02500
Insertion	Chr4	26425841	26425841	1
Insertion	Chr4	7188616	7188679	64	LOC_Os04g13030
Insertion	Chr4	8338683	8338683	1
Insertion	Chr6	30781507	30781507	1
Insertion	Chr7	14959981	14959982	2
Insertion	Chr7	29629256	29629257	2

Inversions: 9

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr6	4043063	4068268	LOC_Os06g08380
Inversion	Chr6	4046889	4068270	LOC_Os06g08380
Inversion	Chr3	7999182	8414338	2
Inversion	Chr3	8415122	8439528	LOC_Os03g15430
Inversion	Chr12	11968690	11987546
Inversion	Chr2	14121142	14964763	2
Inversion	Chr2	14189569	14964757	2
Inversion	Chr4	17939830	27557393	2
Inversion	Chr4	34733603	34785758	LOC_Os04g58380

No Translocation

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr3	7999191	7999191	0	LOC_Os03g14710

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