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Mutant Information

Mutant Name	FN1421-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1421-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) = Very Low (Below 24%) For more information, please see this phenotype file
Mapping (Hover to Zoom-In)

Variant Information

Single base substitutions: 35

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1875765	C-T	HET	INTERGENIC
SBS	Chr1	20178634	C-T	HOMO	INTERGENIC
SBS	Chr1	28157171	T-C	HET	INTERGENIC
SBS	Chr1	31198289	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os01g54230
SBS	Chr1	34905728	A-T	HOMO	INTRON
SBS	Chr2	2185648	A-T	HET	INTERGENIC
SBS	Chr2	18944951	A-G	HET	INTERGENIC
SBS	Chr3	11560228	C-A	HET	UTR_5_PRIME
SBS	Chr4	1455503	T-A	HET	INTRON
SBS	Chr5	5521975	G-T	HET	INTRON
SBS	Chr5	16503537	C-A	HOMO	NON_SYNONYMOUS_CODING	LOC_Os05g28190
SBS	Chr5	21260574	G-A	HET	INTERGENIC
SBS	Chr5	28680674	T-A	HET	INTERGENIC
SBS	Chr7	5849558	C-T	HET	INTERGENIC
SBS	Chr7	10046437	A-G	HET	INTERGENIC
SBS	Chr7	13144518	C-T	HET	INTERGENIC
SBS	Chr7	13957602	C-T	HET	NON_SYNONYMOUS_CODING	LOC_Os07g24520
SBS	Chr7	15219379	C-T	HET	INTERGENIC
SBS	Chr7	28750574	C-T	HET	INTERGENIC
SBS	Chr8	9121275	C-T	HET	INTERGENIC
SBS	Chr8	12822436	C-A	HET	NON_SYNONYMOUS_CODING	LOC_Os08g21520
SBS	Chr8	13004324	C-A	HET	INTRON
SBS	Chr8	17026009	G-T	HET	NON_SYNONYMOUS_CODING	LOC_Os08g27930
SBS	Chr8	18228163	A-T	HET	INTERGENIC
SBS	Chr8	26630317	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os08g42140
SBS	Chr8	26886163	A-G	HOMO	INTRON
SBS	Chr9	15905210	C-T	HET	INTERGENIC
SBS	Chr9	15968487	C-G	HET	INTERGENIC
SBS	Chr10	753204	T-A	HET	INTERGENIC
SBS	Chr11	17078341	C-T	HOMO	INTRON
SBS	Chr11	22701136	T-C	HET	NON_SYNONYMOUS_CODING	LOC_Os11g38330
SBS	Chr12	1763717	C-A	HET	INTERGENIC
SBS	Chr12	9460899	A-T	HOMO	INTERGENIC
SBS	Chr12	13211905	C-T	HET	INTERGENIC
SBS	Chr12	19548045	T-C	HET	INTERGENIC

Deletions: 18

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Deletion	Chr8	291266	291267	1
Deletion	Chr12	1555058	1555069	11	LOC_Os12g03810
Deletion	Chr8	7708765	7708770	5	LOC_Os08g12990
Deletion	Chr10	9585796	9585798	2	LOC_Os10g18830
Deletion	Chr11	11345001	11538000	193000	33
Deletion	Chr10	12670173	12670175	2
Deletion	Chr5	13764361	13764363	2
Deletion	Chr11	15347001	15389000	42000	2
Deletion	Chr7	18428958	18428963	5	LOC_Os07g31140
Deletion	Chr12	19524725	19524828	103
Deletion	Chr10	22041633	22041640	7
Deletion	Chr3	22272565	22272612	47
Deletion	Chr11	24750949	24750965	16	LOC_Os11g41290
Deletion	Chr3	25544230	25544235	5
Deletion	Chr2	26230100	26230118	18
Deletion	Chr8	26886063	26886089	26
Deletion	Chr5	28680675	28680676	1
Deletion	Chr2	29290843	29290856	13	LOC_Os02g47880

Insertions: 5

Variant Type	Chromosome	Start	End	Size (bp)	Number of Genes
Insertion	Chr12	1075382	1075383	2	LOC_Os12g02910
Insertion	Chr12	12451701	12451704	4
Insertion	Chr2	2937606	2937606	1
Insertion	Chr6	23951811	23951811	1
Insertion	Chr7	15852037	15852038	2

Inversions: 3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	988104	1011468	LOC_Os09g02440
Inversion	Chr1	41538578	41688002
Inversion	Chr1	41688004	42096383

Translocations: 6

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr12	610773	Chr4	4507458	LOC_Os12g02050
Translocation	Chr11	2352614	Chr9	14008141	LOC_Os09g23570
Translocation	Chr11	21808432	Chr7	28540481	LOC_Os11g36960
Translocation	Chr12	22158822	Chr6	22062387
Translocation	Chr12	25698161	Chr7	28540851	LOC_Os07g47790
Translocation	Chr12	25698163	Chr7	28540853	LOC_Os07g47790

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