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Mutant Information

Mutant Name	FN704-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN704-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000014 (Panicle Weight) = Low (Between 25% and 74%) TO:0000207 (Plant height) = Normal (Between 75% and 125%) TO:0000445 (Seed Number) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) TO:0000639 (Seed fertility) = Normal (Between 75% and 125%) For more information, please see this phenotype file
Phenotype Changes (Hover to Zoom-In)
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 32

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	43024685	A-T	HOMO	INTERGENIC
SBS	Chr1	6998763	T-C	HET	INTERGENIC
SBS	Chr10	982596	A-G	HOMO	INTERGENIC
SBS	Chr12	20308857	G-T	HET	INTERGENIC
SBS	Chr12	7766142	A-T	HET	INTERGENIC
SBS	Chr12	8985179	C-T	HOMO	INTERGENIC
SBS	Chr12	9715528	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os12g16960
SBS	Chr2	10102959	C-T	HOMO	INTRON
SBS	Chr2	3698170	A-C	HET	INTRON
SBS	Chr2	3971653	G-T	HET	UTR_5_PRIME
SBS	Chr2	4090175	C-A	HET	INTERGENIC
SBS	Chr2	6359217	G-C	HOMO	INTERGENIC
SBS	Chr3	13262125	T-A	HET	INTERGENIC
SBS	Chr3	19992793	A-C	HET	INTERGENIC
SBS	Chr3	20791399	C-T	HET	INTERGENIC
SBS	Chr3	29285306	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os03g51180
SBS	Chr3	29845295	G-C	HET	NON_SYNONYMOUS_CODING	LOC_Os03g52010
SBS	Chr3	407405	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os03g01660
SBS	Chr3	4467224	C-T	HET	INTERGENIC
SBS	Chr4	24127913	G-A	HOMO	INTERGENIC
SBS	Chr5	28462886	A-G	HET	INTERGENIC
SBS	Chr5	477554	C-T	HOMO	INTERGENIC
SBS	Chr5	4879746	C-T	HOMO	INTRON
SBS	Chr5	767276	A-T	HOMO	INTERGENIC
SBS	Chr6	1757929	A-T	HOMO	INTRON
SBS	Chr6	30996592	A-G	HOMO	INTERGENIC
SBS	Chr6	6451998	G-A	HET	INTERGENIC
SBS	Chr7	26185455	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g43760
SBS	Chr7	9981805	T-C	HET	INTERGENIC
SBS	Chr8	27404700	C-T	HOMO	INTRON
SBS	Chr8	9071121	G-A	HOMO	INTERGENIC
SBS	Chr9	19954683	T-C	HET	INTERGENIC

Deletions: 21

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	226905	226907	2
Deletion	Chr5	766225	766229	4
Deletion	Chr7	1250582	1250587	5
Deletion	Chr10	2277007	2277072	65
Deletion	Chr2	5194495	5194496	1	LOC_Os02g09990
Deletion	Chr3	9267422	9267435	13
Deletion	Chr8	12784640	12784641	1
Deletion	Chr10	13106376	13106380	4
Deletion	Chr7	14304461	14304475	14
Deletion	Chr10	20269765	20269831	66
Deletion	Chr8	20810001	20827000	17000	4
Deletion	Chr6	20907260	20907261	1
Deletion	Chr3	21810630	21810639	9	LOC_Os03g39250
Deletion	Chr9	21916144	21916149	5
Deletion	Chr2	23636259	23636270	11
Deletion	Chr6	25903367	25903368	1
Deletion	Chr6	27307127	27307128	1	LOC_Os06g45160
Deletion	Chr11	27677819	27677824	5
Deletion	Chr2	29308827	29308830	3
Deletion	Chr3	33624258	33624275	17
Deletion	Chr1	42095294	42095296	2	LOC_Os01g72570

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	42774203	42774204	2
Insertion	Chr2	18556721	18556726	6	LOC_Os02g31060
Insertion	Chr3	22561110	22561111	2
Insertion	Chr5	2339784	2339784	1
Insertion	Chr9	14806864	14806865	2

Inversions: 1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	350482	763834

Translocations: 7

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr9	6589435	Chr3	20898018	LOC_Os03g37680
Translocation	Chr9	6590096	Chr3	20898017	LOC_Os03g37680
Translocation	Chr9	6590107	Chr5	763853
Translocation	Chr9	6590841	Chr5	350483
Translocation	Chr8	11601792	Chr4	61845
Translocation	Chr2	15723259	Chr1	9625506	LOC_Os02g26780
Translocation	Chr11	22565555	Chr9	8109240

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