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Mutant Information

Mutant Name	FN1453-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1453-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) = Low (Between 25% and 74%) TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 38

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 15472628 T-A Hetero INTERGENIC
SBS Chr1 21252888 G-C Hetero INTERGENIC
SBS Chr1 41916834 G-T Homo INTERGENIC
SBS Chr2 11547813 T-C Homo INTERGENIC
SBS Chr2 15960227 G-A Homo INTERGENIC
SBS Chr2 25000646 C-T Hetero NON_SYNONYMOUS_CODING OsKitaake02g247860
SBS Chr3 26271350 G-C Homo INTERGENIC
SBS Chr3 27993689 A-T Hetero INTERGENIC
SBS Chr4 4501307 G-T Hetero INTERGENIC
SBS Chr4 5203703 T-C Hetero INTERGENIC
SBS Chr4 10215967 A-C Hetero INTERGENIC
SBS Chr4 18235481 C-T Hetero INTERGENIC
SBS Chr4 32163362 T-C Hetero INTERGENIC
SBS Chr4 33681100 G-A Hetero SYNONYMOUS_CODING
SBS Chr5 6016270 G-A Homo INTERGENIC
SBS Chr5 8718412 C-T Hetero INTERGENIC
SBS Chr5 17197251 C-T Hetero INTERGENIC
SBS Chr5 23663844 T-A Hetero INTERGENIC
SBS Chr6 9265450 C-A Homo INTERGENIC
SBS Chr6 19086302 C-T Hetero INTERGENIC
SBS Chr7 11576498 G-A Hetero INTERGENIC
SBS Chr7 15997667 G-C Homo UTR_5_PRIME
SBS Chr7 20661086 C-T Homo INTERGENIC
SBS Chr8 3463501 G-A Homo UTR_3_PRIME
SBS Chr8 5276687 T-G Homo INTERGENIC
SBS Chr8 6676368 G-A Hetero INTERGENIC
SBS Chr8 7277483 A-T Homo INTERGENIC
SBS Chr8 8077214 C-T Homo INTRON
SBS Chr8 11945639 T-A Homo INTRON
SBS Chr8 20170859 G-A Hetero INTERGENIC
SBS Chr8 21262308 G-A Hetero INTERGENIC
SBS Chr9 615572 C-T Hetero INTERGENIC
SBS Chr10 5706917 G-A Homo INTERGENIC
SBS Chr10 13635360 G-A Homo INTERGENIC
SBS Chr11 648452 A-C Homo INTERGENIC
SBS Chr11 20826687 T-A Homo STOP_GAINED OsKitaake11g164500
SBS Chr12 12775624 G-A Hetero INTERGENIC
SBS Chr12 14540525 A-C Hetero INTERGENIC

Deletions: 48

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 352001 362000 9999 OsKitaake01g005200
Deletion Chr1 369001 386000 16999 OsKitaake01g005200
Deletion Chr2 601001 610000 8999 OsKitaake02g009000
Deletion Chr8 1621807 1621808 1 OsKitaake08g020600
Deletion Chr2 1637001 1651000 13999 OsKitaake02g025800
Deletion Chr2 2107001 2119000 11999 3
Deletion Chr3 2527001 2539000 11999 OsKitaake03g035600
Deletion Chr9 2914001 2965000 50999 2
Deletion Chr8 3026001 3041000 14999 OsKitaake08g033900
Deletion Chr10 3547884 3547903 19
Deletion Chr12 3643554 3643569 15
Deletion Chr1 4052333 4052338 5
Deletion Chr2 4265001 4280000 14999 OsKitaake02g060400
Deletion Chr1 4465001 4480000 14999 OsKitaake01g059500
Deletion Chr6 4794884 4794895 11 OsKitaake06g065100
Deletion Chr11 4836001 4847000 10999 OsKitaake11g062000
Deletion Chr1 5520788 5520800 12 OsKitaake01g071100
Deletion Chr3 6091001 6109000 17999 OsKitaake03g087400
Deletion Chr1 6218001 6233000 14999 OsKitaake01g079000
Deletion Chr2 6378001 6391000 12999
Deletion Chr9 6580551 6580555 4
Deletion Chr5 8638001 8654000 15999 OsKitaake05g082400
Deletion Chr7 9318626 9318628 2
Deletion Chr5 9594001 9624000 29999 3
Deletion Chr10 10315450 10315452 2
Deletion Chr6 10937323 10937332 9
Deletion Chr9 14239001 14251000 11999 OsKitaake09g095800
Deletion Chr1 14278654 14278663 9
Deletion Chr1 14678001 14693000 14999 OsKitaake01g166200
Deletion Chr3 14688306 14688309 3
Deletion Chr10 16885556 16885562 6
Deletion Chr5 17055138 17055142 4
Deletion Chr9 18109612 18109617 5
Deletion Chr10 18527001 18538000 10999 3
Deletion Chr4 19007368 19007371 3
Deletion Chr1 21045001 21055000 9999 OsKitaake01g206100
Deletion Chr8 25588676 25588691 15
Deletion Chr6 25993001 26003000 9999 OsKitaake06g232000
Deletion Chr2 26116001 26126000 9999 OsKitaake02g258500
Deletion Chr7 26125647 26125654 7
Deletion Chr7 26848001 26859000 10999 OsKitaake07g250200
Deletion Chr3 26898319 26898321 2
Deletion Chr1 28439639 28439641 2
Deletion Chr3 28578001 28601000 22999 OsKitaake03g296500
Deletion Chr1 28709001 28721000 11999 OsKitaake01g278600
Deletion Chr3 34832001 34844000 11999 OsKitaake03g380100
Deletion Chr1 41002001 41013000 10999 OsKitaake01g447600
Deletion Chr1 44229001 44238000 8999 OsKitaake01g494300

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 22932703 22932706 2
Insertion Chr5 29287059 29287063 3
Insertion Chr8 8157958 8157960 1

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15472628	T-A	Hetero	INTERGENIC
SBS	Chr1	21252888	G-C	Hetero	INTERGENIC
SBS	Chr1	41916834	G-T	Homo	INTERGENIC
SBS	Chr2	11547813	T-C	Homo	INTERGENIC
SBS	Chr2	15960227	G-A	Homo	INTERGENIC
SBS	Chr2	25000646	C-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake02g247860
SBS	Chr3	26271350	G-C	Homo	INTERGENIC
SBS	Chr3	27993689	A-T	Hetero	INTERGENIC
SBS	Chr4	4501307	G-T	Hetero	INTERGENIC
SBS	Chr4	5203703	T-C	Hetero	INTERGENIC
SBS	Chr4	10215967	A-C	Hetero	INTERGENIC
SBS	Chr4	18235481	C-T	Hetero	INTERGENIC
SBS	Chr4	32163362	T-C	Hetero	INTERGENIC
SBS	Chr4	33681100	G-A	Hetero	SYNONYMOUS_CODING
SBS	Chr5	6016270	G-A	Homo	INTERGENIC
SBS	Chr5	8718412	C-T	Hetero	INTERGENIC
SBS	Chr5	17197251	C-T	Hetero	INTERGENIC
SBS	Chr5	23663844	T-A	Hetero	INTERGENIC
SBS	Chr6	9265450	C-A	Homo	INTERGENIC
SBS	Chr6	19086302	C-T	Hetero	INTERGENIC
SBS	Chr7	11576498	G-A	Hetero	INTERGENIC
SBS	Chr7	15997667	G-C	Homo	UTR_5_PRIME
SBS	Chr7	20661086	C-T	Homo	INTERGENIC
SBS	Chr8	3463501	G-A	Homo	UTR_3_PRIME
SBS	Chr8	5276687	T-G	Homo	INTERGENIC
SBS	Chr8	6676368	G-A	Hetero	INTERGENIC
SBS	Chr8	7277483	A-T	Homo	INTERGENIC
SBS	Chr8	8077214	C-T	Homo	INTRON
SBS	Chr8	11945639	T-A	Homo	INTRON
SBS	Chr8	20170859	G-A	Hetero	INTERGENIC
SBS	Chr8	21262308	G-A	Hetero	INTERGENIC
SBS	Chr9	615572	C-T	Hetero	INTERGENIC
SBS	Chr10	5706917	G-A	Homo	INTERGENIC
SBS	Chr10	13635360	G-A	Homo	INTERGENIC
SBS	Chr11	648452	A-C	Homo	INTERGENIC
SBS	Chr11	20826687	T-A	Homo	STOP_GAINED	OsKitaake11g164500
SBS	Chr12	12775624	G-A	Hetero	INTERGENIC
SBS	Chr12	14540525	A-C	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	352001	362000	9999	OsKitaake01g005200
Deletion	Chr1	369001	386000	16999	OsKitaake01g005200
Deletion	Chr2	601001	610000	8999	OsKitaake02g009000
Deletion	Chr8	1621807	1621808	1	OsKitaake08g020600
Deletion	Chr2	1637001	1651000	13999	OsKitaake02g025800
Deletion	Chr2	2107001	2119000	11999	3
Deletion	Chr3	2527001	2539000	11999	OsKitaake03g035600
Deletion	Chr9	2914001	2965000	50999	2
Deletion	Chr8	3026001	3041000	14999	OsKitaake08g033900
Deletion	Chr10	3547884	3547903	19
Deletion	Chr12	3643554	3643569	15
Deletion	Chr1	4052333	4052338	5
Deletion	Chr2	4265001	4280000	14999	OsKitaake02g060400
Deletion	Chr1	4465001	4480000	14999	OsKitaake01g059500
Deletion	Chr6	4794884	4794895	11	OsKitaake06g065100
Deletion	Chr11	4836001	4847000	10999	OsKitaake11g062000
Deletion	Chr1	5520788	5520800	12	OsKitaake01g071100
Deletion	Chr3	6091001	6109000	17999	OsKitaake03g087400
Deletion	Chr1	6218001	6233000	14999	OsKitaake01g079000
Deletion	Chr2	6378001	6391000	12999
Deletion	Chr9	6580551	6580555	4
Deletion	Chr5	8638001	8654000	15999	OsKitaake05g082400
Deletion	Chr7	9318626	9318628	2
Deletion	Chr5	9594001	9624000	29999	3
Deletion	Chr10	10315450	10315452	2
Deletion	Chr6	10937323	10937332	9
Deletion	Chr9	14239001	14251000	11999	OsKitaake09g095800
Deletion	Chr1	14278654	14278663	9
Deletion	Chr1	14678001	14693000	14999	OsKitaake01g166200
Deletion	Chr3	14688306	14688309	3
Deletion	Chr10	16885556	16885562	6
Deletion	Chr5	17055138	17055142	4
Deletion	Chr9	18109612	18109617	5
Deletion	Chr10	18527001	18538000	10999	3
Deletion	Chr4	19007368	19007371	3
Deletion	Chr1	21045001	21055000	9999	OsKitaake01g206100
Deletion	Chr8	25588676	25588691	15
Deletion	Chr6	25993001	26003000	9999	OsKitaake06g232000
Deletion	Chr2	26116001	26126000	9999	OsKitaake02g258500
Deletion	Chr7	26125647	26125654	7
Deletion	Chr7	26848001	26859000	10999	OsKitaake07g250200
Deletion	Chr3	26898319	26898321	2
Deletion	Chr1	28439639	28439641	2
Deletion	Chr3	28578001	28601000	22999	OsKitaake03g296500
Deletion	Chr1	28709001	28721000	11999	OsKitaake01g278600
Deletion	Chr3	34832001	34844000	11999	OsKitaake03g380100
Deletion	Chr1	41002001	41013000	10999	OsKitaake01g447600
Deletion	Chr1	44229001	44238000	8999	OsKitaake01g494300

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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