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Mutant Information

Mutant Name	FN1541-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1541-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal 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: 36

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 12923381 A-G Hetero INTERGENIC
SBS Chr1 23052954 G-A Homo INTERGENIC
SBS Chr1 24475880 C-A Homo INTERGENIC
SBS Chr3 7818575 C-T Homo INTERGENIC
SBS Chr3 16349692 C-T Homo INTERGENIC
SBS Chr3 16856821 T-A Homo INTERGENIC
SBS Chr3 16856827 T-A Homo INTERGENIC
SBS Chr3 24852250 C-T Hetero INTERGENIC
SBS Chr3 25976905 A-T Hetero INTRON
SBS Chr3 27488092 G-A Hetero INTERGENIC
SBS Chr3 37734636 A-T Hetero INTRON
SBS Chr4 21137562 T-C Hetero NON_SYNONYMOUS_CODING OsKitaake04g116200
SBS Chr4 25204948 A-T Hetero INTRON
SBS Chr4 27641778 G-C Hetero INTERGENIC
SBS Chr5 25231253 G-T Homo INTERGENIC
SBS Chr7 24453168 A-T Hetero INTERGENIC
SBS Chr7 24453169 C-T Hetero INTERGENIC
SBS Chr7 25507483 G-A Hetero INTERGENIC
SBS Chr8 506333 G-A Hetero INTERGENIC
SBS Chr8 6467831 G-A Homo INTERGENIC
SBS Chr8 7298334 G-A Homo INTERGENIC
SBS Chr8 14046233 G-A Homo INTERGENIC
SBS Chr8 27950691 G-A Hetero INTERGENIC
SBS Chr8 28824797 A-T Homo INTRON
SBS Chr9 2173991 G-A Homo INTERGENIC
SBS Chr9 3285665 C-A Homo INTERGENIC
SBS Chr10 891935 C-T Hetero INTERGENIC
SBS Chr10 1910808 G-C Hetero SYNONYMOUS_CODING
SBS Chr10 8594109 G-A Hetero INTERGENIC
SBS Chr11 13556560 C-A Homo INTERGENIC
SBS Chr11 16716258 G-A Homo INTERGENIC
SBS Chr11 25607330 T-A Homo UTR_5_PRIME
SBS Chr11 26396483 T-C Homo INTERGENIC
SBS Chr12 2471740 C-T Hetero INTERGENIC
SBS Chr12 9473404 T-A Hetero INTERGENIC
SBS Chr12 21431866 C-A Hetero INTERGENIC

Deletions: 14

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr11 1258939 1258950 11
Deletion Chr11 3874443 3874445 2
Deletion Chr10 4299577 4299582 5
Deletion Chr10 8004230 8004231 1
Deletion Chr10 8096190 8096273 83
Deletion Chr1 11434394 11434398 4
Deletion Chr8 13555761 13555765 4
Deletion Chr3 16858537 16858538 1 OsKitaake03g210900
Deletion Chr11 17841001 17851000 9999
Deletion Chr12 19140640 19140641 1
Deletion Chr8 19715506 19715512 6
Deletion Chr4 29031762 29031763 1
Deletion Chr4 29116001 29184000 67999 10
Deletion Chr4 30760001 30792000 31999 5

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr1 18058236 18058238 1
Insertion Chr6 13707497 13707501 3
Insertion Chr9 12579202 12579205 2
Insertion Chr7 7919308 7919311 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr4 8810879 9249526
Inversion Chr4 8810889 9250608

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr12 12154199 Chr1 12928136
Translocation Chr12 12166961 Chr1 12928175
Translocation Chr12 12166962 Chr3 36045321 OsKitaake03g398000
Translocation Chr12 12169527 Chr3 36045328 OsKitaake03g398000
Translocation Chr9 22188272 Chr3 36209951 2
Translocation Chr9 22188678 Chr3 36209959 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12923381	A-G	Hetero	INTERGENIC
SBS	Chr1	23052954	G-A	Homo	INTERGENIC
SBS	Chr1	24475880	C-A	Homo	INTERGENIC
SBS	Chr3	7818575	C-T	Homo	INTERGENIC
SBS	Chr3	16349692	C-T	Homo	INTERGENIC
SBS	Chr3	16856821	T-A	Homo	INTERGENIC
SBS	Chr3	16856827	T-A	Homo	INTERGENIC
SBS	Chr3	24852250	C-T	Hetero	INTERGENIC
SBS	Chr3	25976905	A-T	Hetero	INTRON
SBS	Chr3	27488092	G-A	Hetero	INTERGENIC
SBS	Chr3	37734636	A-T	Hetero	INTRON
SBS	Chr4	21137562	T-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g116200
SBS	Chr4	25204948	A-T	Hetero	INTRON
SBS	Chr4	27641778	G-C	Hetero	INTERGENIC
SBS	Chr5	25231253	G-T	Homo	INTERGENIC
SBS	Chr7	24453168	A-T	Hetero	INTERGENIC
SBS	Chr7	24453169	C-T	Hetero	INTERGENIC
SBS	Chr7	25507483	G-A	Hetero	INTERGENIC
SBS	Chr8	506333	G-A	Hetero	INTERGENIC
SBS	Chr8	6467831	G-A	Homo	INTERGENIC
SBS	Chr8	7298334	G-A	Homo	INTERGENIC
SBS	Chr8	14046233	G-A	Homo	INTERGENIC
SBS	Chr8	27950691	G-A	Hetero	INTERGENIC
SBS	Chr8	28824797	A-T	Homo	INTRON
SBS	Chr9	2173991	G-A	Homo	INTERGENIC
SBS	Chr9	3285665	C-A	Homo	INTERGENIC
SBS	Chr10	891935	C-T	Hetero	INTERGENIC
SBS	Chr10	1910808	G-C	Hetero	SYNONYMOUS_CODING
SBS	Chr10	8594109	G-A	Hetero	INTERGENIC
SBS	Chr11	13556560	C-A	Homo	INTERGENIC
SBS	Chr11	16716258	G-A	Homo	INTERGENIC
SBS	Chr11	25607330	T-A	Homo	UTR_5_PRIME
SBS	Chr11	26396483	T-C	Homo	INTERGENIC
SBS	Chr12	2471740	C-T	Hetero	INTERGENIC
SBS	Chr12	9473404	T-A	Hetero	INTERGENIC
SBS	Chr12	21431866	C-A	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr11	1258939	1258950	11
Deletion	Chr11	3874443	3874445	2
Deletion	Chr10	4299577	4299582	5
Deletion	Chr10	8004230	8004231	1
Deletion	Chr10	8096190	8096273	83
Deletion	Chr1	11434394	11434398	4
Deletion	Chr8	13555761	13555765	4
Deletion	Chr3	16858537	16858538	1	OsKitaake03g210900
Deletion	Chr11	17841001	17851000	9999
Deletion	Chr12	19140640	19140641	1
Deletion	Chr8	19715506	19715512	6
Deletion	Chr4	29031762	29031763	1
Deletion	Chr4	29116001	29184000	67999	10
Deletion	Chr4	30760001	30792000	31999	5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr4	8810879	9249526
Inversion	Chr4	8810889	9250608

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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