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Mutant Information

Mutant Name	FN1420-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1420-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

Variant Information

Single base substitutions: 32

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 3900438 C-T Hetero INTRON
SBS Chr1 18220866 C-T Hetero INTERGENIC
SBS Chr1 33610089 C-T Hetero UTR_5_PRIME
SBS Chr1 33610090 A-T Hetero UTR_5_PRIME
SBS Chr1 42928659 A-T Homo INTERGENIC
SBS Chr2 16435241 T-C Homo INTERGENIC
SBS Chr2 20864555 C-T Homo NON_SYNONYMOUS_CODING OsKitaake02g201700
SBS Chr3 14577762 A-C Homo INTERGENIC
SBS Chr3 31425425 G-A Homo SYNONYMOUS_CODING
SBS Chr3 36085502 C-A Homo INTERGENIC
SBS Chr4 9657923 C-T Hetero INTERGENIC
SBS Chr5 17479802 C-T Hetero INTERGENIC
SBS Chr5 22703769 C-T Hetero INTRON
SBS Chr5 29302706 G-A Homo NON_SYNONYMOUS_CODING OsKitaake05g278201
SBS Chr6 8328257 G-T Hetero INTERGENIC
SBS Chr6 12097965 C-T Hetero INTERGENIC
SBS Chr6 20078914 A-T Hetero INTERGENIC
SBS Chr6 22884640 G-T Hetero INTERGENIC
SBS Chr6 27315082 T-C Hetero INTERGENIC
SBS Chr6 27767116 C-T Hetero INTERGENIC
SBS Chr7 11125089 G-A Hetero INTERGENIC
SBS Chr7 12800768 C-A Hetero INTERGENIC
SBS Chr8 17273612 G-A Hetero INTERGENIC
SBS Chr10 15400590 G-A Hetero INTERGENIC
SBS Chr10 20404245 G-C Hetero INTERGENIC
SBS Chr11 5950456 T-A Hetero INTRON
SBS Chr11 9713312 C-G Hetero INTERGENIC
SBS Chr11 9713313 G-C Hetero INTERGENIC
SBS Chr11 16834719 C-T Hetero INTERGENIC
SBS Chr11 18241544 A-T Hetero INTERGENIC
SBS Chr11 25287893 G-C Homo INTERGENIC
SBS Chr12 5156187 G-T Hetero INTERGENIC

Deletions: 53

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 576001 597000 20999 3
Deletion Chr9 1160033 1160034 1 OsKitaake09g006900
Deletion Chr10 2166001 2178000 11999 2
Deletion Chr4 2207679 2207680 1
Deletion Chr9 2746615 2746616 1
Deletion Chr10 3493001 3510000 16999 OsKitaake10g026400
Deletion Chr9 3499001 3514000 14999 OsKitaake09g018000
Deletion Chr9 3713001 3728000 14999
Deletion Chr7 3948001 3967000 18999 OsKitaake07g050300
Deletion Chr3 4631796 4631797 1
Deletion Chr7 4742001 4752000 9999
Deletion Chr4 4962001 4975000 12999 OsKitaake04g022400
Deletion Chr2 5093001 5106000 12999
Deletion Chr2 5564256 5564260 4
Deletion Chr12 5784001 5799000 14999 2
Deletion Chr11 7856001 7868000 11999 OsKitaake11g087100
Deletion Chr6 8237001 8252000 14999 OsKitaake06g103700
Deletion Chr8 9517532 9517533 1
Deletion Chr4 11221456 11221457 1
Deletion Chr8 11422001 11487000 64999 2
Deletion Chr2 11583001 11596000 12999 OsKitaake02g133900
Deletion Chr2 12748001 12765000 16999 4
Deletion Chr3 14529956 14529957 1
Deletion Chr2 14747241 14747243 2
Deletion Chr2 15219483 15219484 1
Deletion Chr5 15843439 15843440 1
Deletion Chr8 16562001 16580000 17999 4
Deletion Chr1 16666001 16684000 17999 OsKitaake01g177400
Deletion Chr5 16790001 16804000 13999 OsKitaake05g128600
Deletion Chr5 16864001 16877000 12999 OsKitaake05g128800
Deletion Chr5 17066001 17092000 25999 OsKitaake05g131400
Deletion Chr2 17539001 17558000 18999 OsKitaake02g176100
Deletion Chr10 18692001 18704000 11999 2
Deletion Chr4 19406582 19406584 2 OsKitaake04g099300
Deletion Chr4 19451125 19451126 1
Deletion Chr3 19525756 19525768 12
Deletion Chr9 19578001 19590000 11999 OsKitaake09g160200
Deletion Chr4 19635001 19662000 26999 2
Deletion Chr3 19998001 20023000 24999 OsKitaake03g230101
Deletion Chr1 20687001 20702000 14999 OsKitaake01g202700
Deletion Chr12 21616001 21631000 14999
Deletion Chr4 22686193 22686199 6 OsKitaake04g134700
Deletion Chr12 23797001 23822000 24999 3
Deletion Chr6 24032001 24047000 14999
Deletion Chr3 25215001 25233000 17999 OsKitaake03g266800
Deletion Chr4 26751810 26751811 1
Deletion Chr11 27640885 27640995 110
Deletion Chr7 28994913 28994914 1 OsKitaake07g277000
Deletion Chr3 31015001 31030000 14999 OsKitaake03g325700
Deletion Chr2 32163001 32186000 22999 2
Deletion Chr4 32815001 32834000 18999 3
Deletion Chr2 35332312 35332322 10
Deletion Chr1 42310001 42325000 14999 OsKitaake01g466400

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 11856427 11856430 2
Insertion Chr1 44042278 44042281 2
Insertion Chr2 30313735 30313741 5
Insertion Chr8 17119630 17119633 2
Insertion Chr11 12462747 12462749 1

Inversions: 3

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr9 12843259 13694606
Inversion Chr9 12843276 13694609
Inversion Chr5 13640221 13642633

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 14104296 Chr6 22919390 OsKitaake10g087500
Translocation Chr10 14105889 Chr6 21088049

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3900438	C-T	Hetero	INTRON
SBS	Chr1	18220866	C-T	Hetero	INTERGENIC
SBS	Chr1	33610089	C-T	Hetero	UTR_5_PRIME
SBS	Chr1	33610090	A-T	Hetero	UTR_5_PRIME
SBS	Chr1	42928659	A-T	Homo	INTERGENIC
SBS	Chr2	16435241	T-C	Homo	INTERGENIC
SBS	Chr2	20864555	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake02g201700
SBS	Chr3	14577762	A-C	Homo	INTERGENIC
SBS	Chr3	31425425	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr3	36085502	C-A	Homo	INTERGENIC
SBS	Chr4	9657923	C-T	Hetero	INTERGENIC
SBS	Chr5	17479802	C-T	Hetero	INTERGENIC
SBS	Chr5	22703769	C-T	Hetero	INTRON
SBS	Chr5	29302706	G-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake05g278201
SBS	Chr6	8328257	G-T	Hetero	INTERGENIC
SBS	Chr6	12097965	C-T	Hetero	INTERGENIC
SBS	Chr6	20078914	A-T	Hetero	INTERGENIC
SBS	Chr6	22884640	G-T	Hetero	INTERGENIC
SBS	Chr6	27315082	T-C	Hetero	INTERGENIC
SBS	Chr6	27767116	C-T	Hetero	INTERGENIC
SBS	Chr7	11125089	G-A	Hetero	INTERGENIC
SBS	Chr7	12800768	C-A	Hetero	INTERGENIC
SBS	Chr8	17273612	G-A	Hetero	INTERGENIC
SBS	Chr10	15400590	G-A	Hetero	INTERGENIC
SBS	Chr10	20404245	G-C	Hetero	INTERGENIC
SBS	Chr11	5950456	T-A	Hetero	INTRON
SBS	Chr11	9713312	C-G	Hetero	INTERGENIC
SBS	Chr11	9713313	G-C	Hetero	INTERGENIC
SBS	Chr11	16834719	C-T	Hetero	INTERGENIC
SBS	Chr11	18241544	A-T	Hetero	INTERGENIC
SBS	Chr11	25287893	G-C	Homo	INTERGENIC
SBS	Chr12	5156187	G-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	576001	597000	20999	3
Deletion	Chr9	1160033	1160034	1	OsKitaake09g006900
Deletion	Chr10	2166001	2178000	11999	2
Deletion	Chr4	2207679	2207680	1
Deletion	Chr9	2746615	2746616	1
Deletion	Chr10	3493001	3510000	16999	OsKitaake10g026400
Deletion	Chr9	3499001	3514000	14999	OsKitaake09g018000
Deletion	Chr9	3713001	3728000	14999
Deletion	Chr7	3948001	3967000	18999	OsKitaake07g050300
Deletion	Chr3	4631796	4631797	1
Deletion	Chr7	4742001	4752000	9999
Deletion	Chr4	4962001	4975000	12999	OsKitaake04g022400
Deletion	Chr2	5093001	5106000	12999
Deletion	Chr2	5564256	5564260	4
Deletion	Chr12	5784001	5799000	14999	2
Deletion	Chr11	7856001	7868000	11999	OsKitaake11g087100
Deletion	Chr6	8237001	8252000	14999	OsKitaake06g103700
Deletion	Chr8	9517532	9517533	1
Deletion	Chr4	11221456	11221457	1
Deletion	Chr8	11422001	11487000	64999	2
Deletion	Chr2	11583001	11596000	12999	OsKitaake02g133900
Deletion	Chr2	12748001	12765000	16999	4
Deletion	Chr3	14529956	14529957	1
Deletion	Chr2	14747241	14747243	2
Deletion	Chr2	15219483	15219484	1
Deletion	Chr5	15843439	15843440	1
Deletion	Chr8	16562001	16580000	17999	4
Deletion	Chr1	16666001	16684000	17999	OsKitaake01g177400
Deletion	Chr5	16790001	16804000	13999	OsKitaake05g128600
Deletion	Chr5	16864001	16877000	12999	OsKitaake05g128800
Deletion	Chr5	17066001	17092000	25999	OsKitaake05g131400
Deletion	Chr2	17539001	17558000	18999	OsKitaake02g176100
Deletion	Chr10	18692001	18704000	11999	2
Deletion	Chr4	19406582	19406584	2	OsKitaake04g099300
Deletion	Chr4	19451125	19451126	1
Deletion	Chr3	19525756	19525768	12
Deletion	Chr9	19578001	19590000	11999	OsKitaake09g160200
Deletion	Chr4	19635001	19662000	26999	2
Deletion	Chr3	19998001	20023000	24999	OsKitaake03g230101
Deletion	Chr1	20687001	20702000	14999	OsKitaake01g202700
Deletion	Chr12	21616001	21631000	14999
Deletion	Chr4	22686193	22686199	6	OsKitaake04g134700
Deletion	Chr12	23797001	23822000	24999	3
Deletion	Chr6	24032001	24047000	14999
Deletion	Chr3	25215001	25233000	17999	OsKitaake03g266800
Deletion	Chr4	26751810	26751811	1
Deletion	Chr11	27640885	27640995	110
Deletion	Chr7	28994913	28994914	1	OsKitaake07g277000
Deletion	Chr3	31015001	31030000	14999	OsKitaake03g325700
Deletion	Chr2	32163001	32186000	22999	2
Deletion	Chr4	32815001	32834000	18999	3
Deletion	Chr2	35332312	35332322	10
Deletion	Chr1	42310001	42325000	14999	OsKitaake01g466400

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr9	12843259	13694606
Inversion	Chr9	12843276	13694609
Inversion	Chr5	13640221	13642633

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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

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes