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Mutant Information

Mutant Name	FN1476-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1476-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:0000346 (Tiller number) = 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: 40

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12109638	C-G	HET	INTRON
SBS	Chr1	5306620	T-C	HET	INTERGENIC
SBS	Chr10	20094120	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os10g37520
SBS	Chr10	7278933	T-C	Homo	NON_SYNONYMOUS_CODING	LOC_Os10g13470
SBS	Chr12	15404942	G-A	HET	INTERGENIC
SBS	Chr12	16178552	A-G	HET	INTERGENIC
SBS	Chr12	17169954	T-C	HET	SYNONYMOUS_CODING
SBS	Chr12	17539184	T-C	HET	SYNONYMOUS_CODING
SBS	Chr12	3287187	G-C	HET	INTERGENIC
SBS	Chr2	115824	A-T	HET	INTERGENIC
SBS	Chr2	1512699	C-A	HET	INTERGENIC
SBS	Chr2	21671853	T-C	HET	SYNONYMOUS_CODING
SBS	Chr2	31706652	C-T	Homo	INTRON
SBS	Chr2	9652991	C-T	HET	INTRON
SBS	Chr3	10131560	T-G	Homo	INTERGENIC
SBS	Chr3	14612073	G-T	Homo	INTERGENIC
SBS	Chr3	17877359	G-C	Homo	INTERGENIC
SBS	Chr3	18242772	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr4	24382093	A-C	HET	INTRON
SBS	Chr4	26151802	A-G	HET	INTERGENIC
SBS	Chr4	27089025	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os04g45770
SBS	Chr5	14275937	G-A	HET	INTERGENIC
SBS	Chr5	15726141	T-A	HET	INTERGENIC
SBS	Chr5	24887075	T-A	HET	INTERGENIC
SBS	Chr5	3035781	G-A	HET	INTERGENIC
SBS	Chr5	9784246	T-C	HET	INTERGENIC
SBS	Chr5	9913659	C-T	HET	INTERGENIC
SBS	Chr6	2398164	A-T	HET	INTERGENIC
SBS	Chr7	10522409	C-T	HET	INTRON
SBS	Chr7	1137712	T-C	HET	INTERGENIC
SBS	Chr7	28415811	C-T	HET	INTERGENIC
SBS	Chr8	18088620	G-T	HET	INTRON
SBS	Chr8	18966128	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g30740
SBS	Chr8	4062140	C-T	HET	INTERGENIC
SBS	Chr8	7124429	C-T	HET	INTERGENIC
SBS	Chr8	7935184	C-T	HET	INTERGENIC
SBS	Chr8	8756894	C-T	HET	INTERGENIC
SBS	Chr8	8756903	T-A	HET	INTERGENIC
SBS	Chr8	9853793	C-T	HET	INTRON
SBS	Chr9	6750842	T-G	Homo	INTERGENIC

Deletions: 36

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr4	1525288	1525298	10
Deletion	Chr2	2011213	2011217	4
Deletion	Chr12	3635858	3635862	4
Deletion	Chr9	5511229	5511230	1
Deletion	Chr9	5518020	5518021	1
Deletion	Chr9	5524811	5524812	1
Deletion	Chr3	5541796	5541797	1
Deletion	Chr3	7242042	7242056	14
Deletion	Chr11	7309391	7309392	1
Deletion	Chr10	7668455	7668476	21
Deletion	Chr2	8012086	8012092	6
Deletion	Chr5	8546043	8546044	1
Deletion	Chr5	9125579	9125583	4
Deletion	Chr12	9131863	9131866	3
Deletion	Chr2	9653057	9653062	5
Deletion	Chr3	10046057	10046083	26
Deletion	Chr2	11451118	11451120	2
Deletion	Chr3	12458298	12458306	8
Deletion	Chr9	13823664	13823671	7
Deletion	Chr5	14278194	14278216	22
Deletion	Chr5	15069570	15069585	15	LOC_Os05g25910
Deletion	Chr5	18635252	18635253	1
Deletion	Chr12	19769319	19769423	104
Deletion	Chr10	20096667	20096670	3
Deletion	Chr3	20900201	20900207	6
Deletion	Chr10	21383953	21383955	2
Deletion	Chr9	21573393	21573416	23
Deletion	Chr1	23686880	23686881	1
Deletion	Chr7	23741205	23741209	4
Deletion	Chr4	24580489	24580765	276
Deletion	Chr4	25370006	25370022	16
Deletion	Chr3	26544383	26544385	2
Deletion	Chr8	26919965	26919987	22	LOC_Os08g42590
Deletion	Chr7	27213660	27213664	4
Deletion	Chr2	27585157	27585166	9
Deletion	Chr1	31247855	31247857	2

Insertions: 12

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr11	28782639	28782640	2
Insertion	Chr11	9521670	9521673	4
Insertion	Chr12	17145241	17145241	1
Insertion	Chr12	17680366	17680407	42
Insertion	Chr3	15780243	15780244	2
Insertion	Chr4	17801350	17801351	2
Insertion	Chr4	31822595	31822595	1	LOC_Os04g53440
Insertion	Chr4	33820150	33820179	30
Insertion	Chr6	20646863	20646863	1
Insertion	Chr7	11088367	11088370	4
Insertion	Chr7	23027057	23027078	22
Insertion	Chr8	17142230	17142231	2

Inversions: 4

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr5	16491439	21259337	LOC_Os05g35830
Inversion	Chr5	16491462	21261867
Inversion	Chr4	25688476	26111159	2
Inversion	Chr4	25868500	26023572	LOC_Os04g43710

Translocations: 3

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	231690	Chr5	15113870
Translocation	Chr4	26111172	Chr1	24821771	LOC_Os04g44090
Translocation	Chr4	26112404	Chr1	24821725	LOC_Os04g44100

Tandem duplications: 1

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Tandem Duplication	Chr5	19798487	19811665	13178	2

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