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Mutant Information

Mutant Name	FN1625-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1625-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: 43

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	17287349	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g31590
SBS	Chr1	20879771	C-T	HET	INTRON
SBS	Chr1	29472767	T-C	HET	INTERGENIC
SBS	Chr1	42356389	G-C	Homo	INTERGENIC
SBS	Chr1	43183354	C-T	HET	INTERGENIC
SBS	Chr1	6413835	G-A	HET	INTRON
SBS	Chr10	1029287	C-T	HET	INTERGENIC
SBS	Chr10	12212715	C-T	Homo	INTERGENIC
SBS	Chr10	19691925	A-C	Homo	STOP_LOST	LOC_Os10g36780
SBS	Chr10	5543226	A-C	HET	UTR_5_PRIME
SBS	Chr10	972685	A-G	HET	INTERGENIC
SBS	Chr11	1415562	C-A	Homo	INTERGENIC
SBS	Chr11	1415563	G-A	Homo	INTERGENIC
SBS	Chr11	9896751	A-G	Homo	UTR_3_PRIME
SBS	Chr12	1093998	A-T	HET	UTR_3_PRIME
SBS	Chr12	5066445	C-T	HET	SPLICE_SITE_REGION
SBS	Chr12	7785851	T-G	HET	INTERGENIC
SBS	Chr2	22804361	C-A	HET	INTERGENIC
SBS	Chr2	31974734	T-A	HET	INTERGENIC
SBS	Chr2	8150934	C-A	HET	INTERGENIC
SBS	Chr3	6008766	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os03g11580
SBS	Chr4	21765384	G-A	Homo	INTERGENIC
SBS	Chr5	11346490	G-T	HET	INTRON
SBS	Chr5	14030327	C-G	HET	INTERGENIC
SBS	Chr5	15109189	C-T	HET	INTERGENIC
SBS	Chr5	20636146	C-T	HET	INTERGENIC
SBS	Chr5	27786373	C-G	HET	SYNONYMOUS_CODING
SBS	Chr6	23077422	G-A	Homo	INTRON
SBS	Chr6	27404425	A-C	HET	INTERGENIC
SBS	Chr6	27961286	A-T	HET	INTRON
SBS	Chr6	28248330	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os06g46520
SBS	Chr6	4781945	G-A	HET	INTERGENIC
SBS	Chr7	22124902	G-A	Homo	INTERGENIC
SBS	Chr7	29454628	C-T	HET	INTERGENIC
SBS	Chr8	25105200	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g39640
SBS	Chr8	25153267	C-T	HET	INTERGENIC
SBS	Chr8	5215928	A-G	HET	INTERGENIC
SBS	Chr9	13978047	T-C	HET	INTERGENIC
SBS	Chr9	15568122	C-A	HET	INTERGENIC
SBS	Chr9	18593617	G-A	Homo	INTERGENIC
SBS	Chr9	18593618	G-A	Homo	INTERGENIC
SBS	Chr9	589319	C-T	HET	INTERGENIC
SBS	Chr9	6315964	C-T	HET	INTERGENIC

Deletions: 31

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr10	157655	157657	2
Deletion	Chr9	773921	773989	68
Deletion	Chr2	1807636	1807637	1
Deletion	Chr6	2554725	2554728	3
Deletion	Chr2	2867063	2867080	17	LOC_Os02g05810
Deletion	Chr1	4631519	4631521	2
Deletion	Chr2	4697001	4779000	82000	13
Deletion	Chr3	6684672	6689522	4850	LOC_Os03g12600
Deletion	Chr9	9479975	9479977	2
Deletion	Chr1	10088658	10088665	7
Deletion	Chr9	13756001	13823000	67000	9
Deletion	Chr3	14715603	14715604	1
Deletion	Chr3	14826325	14826339	14
Deletion	Chr1	14887086	14887104	18
Deletion	Chr9	15392087	15392090	3
Deletion	Chr1	15722010	15722016	6
Deletion	Chr8	15978684	15978693	9
Deletion	Chr1	16290790	16290791	1
Deletion	Chr8	16802771	16802772	1
Deletion	Chr11	17494659	17494779	120
Deletion	Chr9	17678287	17678288	1
Deletion	Chr9	18198710	18198717	7
Deletion	Chr5	20065180	20065283	103	LOC_Os05g33980
Deletion	Chr6	20444075	20444079	4
Deletion	Chr6	25287126	25287127	1
Deletion	Chr7	25348094	25348096	2	LOC_Os07g42370
Deletion	Chr8	27842126	27842128	2
Deletion	Chr2	32147319	32147337	18
Deletion	Chr3	34797086	34797097	11
Deletion	Chr2	34863839	34863851	12
Deletion	Chr2	35704552	35714599	10047	2

Insertions: 15

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	10777941	10777958	18	LOC_Os01g19050
Insertion	Chr1	11387051	11387053	3
Insertion	Chr1	24524866	24524869	4
Insertion	Chr1	26513763	26513766	4
Insertion	Chr1	38401727	38401727	1
Insertion	Chr12	3701937	3701970	34
Insertion	Chr2	12938779	12938788	10
Insertion	Chr2	9359898	9359899	2
Insertion	Chr3	18056814	18056814	1
Insertion	Chr5	21036906	21036906	1
Insertion	Chr5	21280846	21280847	2
Insertion	Chr5	23445280	23445281	2
Insertion	Chr6	2340869	2340869	1
Insertion	Chr7	27544679	27544679	1
Insertion	Chr8	774395	774400	6

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr12	775449	1362370	LOC_Os12g03470
Inversion	Chr8	18818928	19219172

Translocations: 8

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr6	1207606	Chr4	14957132	2
Translocation	Chr11	1986111	Chr1	40935919
Translocation	Chr11	1986283	Chr1	40935911
Translocation	Chr12	4372113	Chr6	21999589	LOC_Os06g37250
Translocation	Chr11	13157035	Chr3	6684690
Translocation	Chr11	13157045	Chr3	6689547	LOC_Os03g12600
Translocation	Chr11	21327648	Chr3	25354092
Translocation	Chr11	27466140	Chr5	11752869

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