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Mutant Information

Mutant Name	FN2129-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2129-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 46

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 8708355 A-G Hetero INTRON
SBS Chr1 21541333 A-G Homo INTERGENIC
SBS Chr1 21837953 A-T Hetero INTERGENIC
SBS Chr1 24475756 T-A Hetero INTERGENIC
SBS Chr2 124630 T-C Hetero UTR_5_PRIME
SBS Chr2 5912858 T-C Hetero INTRON
SBS Chr2 15458902 G-A Hetero INTERGENIC
SBS Chr2 18292444 C-T Hetero INTERGENIC
SBS Chr2 32257885 G-A Hetero INTERGENIC
SBS Chr2 32257886 T-G Hetero INTERGENIC
SBS Chr3 26115336 G-C Homo INTERGENIC
SBS Chr4 11526765 T-C Hetero INTERGENIC
SBS Chr4 17057153 C-G Hetero INTERGENIC
SBS Chr4 20168676 C-T Hetero INTRON
SBS Chr4 26197314 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake04g185900
SBS Chr4 26543442 C-T Hetero INTERGENIC
SBS Chr5 9020466 C-T Homo INTERGENIC
SBS Chr6 8959743 C-A Hetero INTRON
SBS Chr6 21786795 C-T Homo SPLICE_SITE_ACCEPTOR OsKitaake06g191900
SBS Chr6 22616419 T-A Homo INTERGENIC
SBS Chr6 22873417 A-G Homo INTERGENIC
SBS Chr6 26212186 C-G Hetero INTERGENIC
SBS Chr7 995930 T-C Homo UTR_3_PRIME
SBS Chr8 3635259 T-C Hetero INTERGENIC
SBS Chr8 8273452 C-T Homo INTERGENIC
SBS Chr8 12528301 T-C Hetero INTERGENIC
SBS Chr8 17032691 G-A Homo INTERGENIC
SBS Chr8 17873765 A-T Hetero INTERGENIC
SBS Chr8 27830062 G-A Hetero INTERGENIC
SBS Chr9 8047961 C-A Hetero INTERGENIC
SBS Chr9 10615819 G-T Hetero INTERGENIC
SBS Chr9 14086228 A-G Hetero INTERGENIC
SBS Chr10 552928 G-A Homo INTERGENIC
SBS Chr10 3556191 G-C Hetero INTERGENIC
SBS Chr10 22865348 G-A Hetero INTERGENIC
SBS Chr11 1679982 A-G Hetero INTRON
SBS Chr11 4087965 C-T Hetero INTRON
SBS Chr11 5550316 G-A Hetero INTERGENIC
SBS Chr11 5838204 G-A Hetero INTERGENIC
SBS Chr11 7805199 G-T Homo INTERGENIC
SBS Chr12 6350728 C-T Hetero INTERGENIC
SBS Chr12 16801701 C-T Hetero INTERGENIC
SBS Chr12 18136829 C-A Hetero NON_SYNONYMOUS_CODING OsKitaake12g133400
SBS Chr12 20469045 C-T Homo INTERGENIC
SBS Chr12 24742223 C-A Homo INTERGENIC
SBS Chr12 24742224 C-T Homo INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr11 249406 249412 6 OsKitaake11g001800
Deletion Chr4 2870222 2870223 1
Deletion Chr4 3030471 3030473 2
Deletion Chr8 4812611 4812612 1
Deletion Chr7 9372067 9372068 1
Deletion Chr4 13958334 13958337 3
Deletion Chr8 17242001 17256000 13999
Deletion Chr4 18235369 18235370 1
Deletion Chr5 21857480 21857482 2
Deletion Chr3 23509438 23509446 8
Deletion Chr1 23684339 23684351 12
Deletion Chr8 24414696 24414713 17
Deletion Chr8 27591992 27591993 1
Deletion Chr4 29707276 29707278 2
Deletion Chr4 35201324 35201325 1 OsKitaake04g296700

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 23591868 23591871 2
Insertion Chr1 32299490 32299493 2
Insertion Chr2 956937 956940 2
Insertion Chr5 5552618 5552621 2
Insertion Chr8 29321505 29321513 7

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	8708355	A-G	Hetero	INTRON
SBS	Chr1	21541333	A-G	Homo	INTERGENIC
SBS	Chr1	21837953	A-T	Hetero	INTERGENIC
SBS	Chr1	24475756	T-A	Hetero	INTERGENIC
SBS	Chr2	124630	T-C	Hetero	UTR_5_PRIME
SBS	Chr2	5912858	T-C	Hetero	INTRON
SBS	Chr2	15458902	G-A	Hetero	INTERGENIC
SBS	Chr2	18292444	C-T	Hetero	INTERGENIC
SBS	Chr2	32257885	G-A	Hetero	INTERGENIC
SBS	Chr2	32257886	T-G	Hetero	INTERGENIC
SBS	Chr3	26115336	G-C	Homo	INTERGENIC
SBS	Chr4	11526765	T-C	Hetero	INTERGENIC
SBS	Chr4	17057153	C-G	Hetero	INTERGENIC
SBS	Chr4	20168676	C-T	Hetero	INTRON
SBS	Chr4	26197314	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g185900
SBS	Chr4	26543442	C-T	Hetero	INTERGENIC
SBS	Chr5	9020466	C-T	Homo	INTERGENIC
SBS	Chr6	8959743	C-A	Hetero	INTRON
SBS	Chr6	21786795	C-T	Homo	SPLICE_SITE_ACCEPTOR	OsKitaake06g191900
SBS	Chr6	22616419	T-A	Homo	INTERGENIC
SBS	Chr6	22873417	A-G	Homo	INTERGENIC
SBS	Chr6	26212186	C-G	Hetero	INTERGENIC
SBS	Chr7	995930	T-C	Homo	UTR_3_PRIME
SBS	Chr8	3635259	T-C	Hetero	INTERGENIC
SBS	Chr8	8273452	C-T	Homo	INTERGENIC
SBS	Chr8	12528301	T-C	Hetero	INTERGENIC
SBS	Chr8	17032691	G-A	Homo	INTERGENIC
SBS	Chr8	17873765	A-T	Hetero	INTERGENIC
SBS	Chr8	27830062	G-A	Hetero	INTERGENIC
SBS	Chr9	8047961	C-A	Hetero	INTERGENIC
SBS	Chr9	10615819	G-T	Hetero	INTERGENIC
SBS	Chr9	14086228	A-G	Hetero	INTERGENIC
SBS	Chr10	552928	G-A	Homo	INTERGENIC
SBS	Chr10	3556191	G-C	Hetero	INTERGENIC
SBS	Chr10	22865348	G-A	Hetero	INTERGENIC
SBS	Chr11	1679982	A-G	Hetero	INTRON
SBS	Chr11	4087965	C-T	Hetero	INTRON
SBS	Chr11	5550316	G-A	Hetero	INTERGENIC
SBS	Chr11	5838204	G-A	Hetero	INTERGENIC
SBS	Chr11	7805199	G-T	Homo	INTERGENIC
SBS	Chr12	6350728	C-T	Hetero	INTERGENIC
SBS	Chr12	16801701	C-T	Hetero	INTERGENIC
SBS	Chr12	18136829	C-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake12g133400
SBS	Chr12	20469045	C-T	Homo	INTERGENIC
SBS	Chr12	24742223	C-A	Homo	INTERGENIC
SBS	Chr12	24742224	C-T	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr11	249406	249412	6	OsKitaake11g001800
Deletion	Chr4	2870222	2870223	1
Deletion	Chr4	3030471	3030473	2
Deletion	Chr8	4812611	4812612	1
Deletion	Chr7	9372067	9372068	1
Deletion	Chr4	13958334	13958337	3
Deletion	Chr8	17242001	17256000	13999
Deletion	Chr4	18235369	18235370	1
Deletion	Chr5	21857480	21857482	2
Deletion	Chr3	23509438	23509446	8
Deletion	Chr1	23684339	23684351	12
Deletion	Chr8	24414696	24414713	17
Deletion	Chr8	27591992	27591993	1
Deletion	Chr4	29707276	29707278	2
Deletion	Chr4	35201324	35201325	1	OsKitaake04g296700

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Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes