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Mutant Information

Mutant Name	FN1475-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1475-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: 38

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12230617	G-A	HET	INTERGENIC
SBS	Chr1	14165816	T-C	HET	INTERGENIC
SBS	Chr1	31016139	A-T	Homo	INTRON
SBS	Chr1	31033721	T-G	Homo	INTERGENIC
SBS	Chr1	38881855	C-T	HET	INTERGENIC
SBS	Chr10	11482731	T-C	HET	INTERGENIC
SBS	Chr10	20628203	G-A	HET	INTERGENIC
SBS	Chr12	8377680	G-A	HET	NON_SYNONYMOUS_CODING	LOC_Os12g14650
SBS	Chr12	9457353	T-C	HET	INTERGENIC
SBS	Chr2	30007821	G-A	Homo	INTERGENIC
SBS	Chr2	5527303	A-C	HET	INTRON
SBS	Chr3	14454112	C-A	HET	INTERGENIC
SBS	Chr3	17229709	C-T	HET	INTERGENIC
SBS	Chr3	20359367	C-T	HET	INTERGENIC
SBS	Chr3	21426818	C-T	Homo	INTERGENIC
SBS	Chr3	2894154	A-T	HET	INTERGENIC
SBS	Chr3	29183105	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os03g51040
SBS	Chr4	19896923	C-T	Homo	INTERGENIC
SBS	Chr5	12755888	G-A	HET	SYNONYMOUS_CODING
SBS	Chr5	18902586	A-T	HET	INTERGENIC
SBS	Chr5	24307624	A-G	HET	NON_SYNONYMOUS_CODING	LOC_Os05g41510
SBS	Chr5	5612458	T-A	HET	INTERGENIC
SBS	Chr5	604451	G-T	Homo	INTERGENIC
SBS	Chr6	25231596	T-A	HET	NON_SYNONYMOUS_CODING	LOC_Os06g42020
SBS	Chr7	10830532	C-T	HET	INTERGENIC
SBS	Chr7	11297541	T-C	HET	INTERGENIC
SBS	Chr7	12614806	G-A	HET	INTERGENIC
SBS	Chr7	2466085	A-C	HET	INTRON
SBS	Chr7	26244104	C-T	HET	INTRON
SBS	Chr7	5070662	A-G	HET	INTERGENIC
SBS	Chr8	19429395	A-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g31410
SBS	Chr9	11446740	C-T	HET	INTERGENIC
SBS	Chr9	12509300	G-A	HET	SYNONYMOUS_CODING
SBS	Chr9	13401876	G-A	HET	INTERGENIC
SBS	Chr9	14818343	C-A	HET	INTERGENIC
SBS	Chr9	17900087	A-T	Homo	INTERGENIC
SBS	Chr9	17900088	C-G	Homo	INTERGENIC
SBS	Chr9	6880689	T-A	Homo	INTERGENIC

Deletions: 28

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr11	688333	688334	1
Deletion	Chr10	3848072	3848074	2
Deletion	Chr11	4732980	4732988	8
Deletion	Chr10	4871521	4871523	2
Deletion	Chr10	6047376	6047397	21	LOC_Os10g10904
Deletion	Chr5	8336631	8336633	2
Deletion	Chr3	13864819	13864821	2
Deletion	Chr9	14429195	14429205	10
Deletion	Chr8	14433740	14433742	2
Deletion	Chr9	14637146	14637153	7
Deletion	Chr4	16254513	16254521	8
Deletion	Chr12	16487803	16487809	6
Deletion	Chr12	17272847	17272849	2
Deletion	Chr11	19282698	19282699	1
Deletion	Chr2	20497641	20497658	17
Deletion	Chr1	21045122	21045124	2
Deletion	Chr9	21717301	21717314	13
Deletion	Chr3	21748454	21748455	1
Deletion	Chr5	22830001	22830002	1
Deletion	Chr2	24022495	24022503	8
Deletion	Chr7	24599852	24599853	1
Deletion	Chr7	25025065	25025066	1	LOC_Os07g41770
Deletion	Chr6	27303608	27303609	1	LOC_Os06g45150
Deletion	Chr5	28114197	28114231	34
Deletion	Chr7	28279984	28279988	4
Deletion	Chr1	29597119	29597120	1
Deletion	Chr4	29664069	29664070	1
Deletion	Chr5	29796324	29796325	1

Insertions: 14

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr1	22029103	22029116	14
Insertion	Chr10	17413274	17413297	24
Insertion	Chr10	4299561	4299590	30
Insertion	Chr12	1015859	1015879	21
Insertion	Chr2	18330104	18330127	24	LOC_Os02g30770
Insertion	Chr4	7017770	7017771	2
Insertion	Chr5	18483723	18483723	1
Insertion	Chr5	8560911	8560911	1
Insertion	Chr6	10216060	10216060	1
Insertion	Chr6	18663246	18663246	1
Insertion	Chr7	26244093	26244094	2
Insertion	Chr7	3359447	3359456	10	LOC_Os07g06870
Insertion	Chr8	11392455	11392455	1
Insertion	Chr8	6080851	6080851	1

Inversions: 2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	5211832	5310504	2
Inversion	Chr1	5212899	5310515	2

Translocations: 5

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr5	412478	Chr4	19388011	2
Translocation	Chr5	425588	Chr4	19387892	2
Translocation	Chr8	11122928	Chr3	20627755	LOC_Os08g18140
Translocation	Chr8	18937202	Chr1	5212876	LOC_Os01g10000
Translocation	Chr8	19401010	Chr1	5211846	LOC_Os01g10000

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