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Mutant Information

Mutant Name	FN1380-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1380-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Albino and Normal (6.67% Albino) 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: 43

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 2185530 A-G Hetero INTERGENIC
SBS Chr1 5220199 G-A Hetero INTERGENIC
SBS Chr1 11892203 T-C Hetero INTERGENIC
SBS Chr1 14422737 A-T Hetero INTERGENIC
SBS Chr1 17832738 C-T Hetero INTERGENIC
SBS Chr1 40370287 T-A Hetero INTERGENIC
SBS Chr2 2303025 C-G Hetero INTERGENIC
SBS Chr2 6299441 A-T Hetero INTERGENIC
SBS Chr3 6947837 C-A Homo INTERGENIC
SBS Chr3 11622326 T-C Hetero INTERGENIC
SBS Chr3 26994333 T-C Hetero INTERGENIC
SBS Chr3 27057275 C-T Hetero INTERGENIC
SBS Chr3 36623910 G-T Homo INTERGENIC
SBS Chr4 1626955 T-C Hetero INTERGENIC
SBS Chr4 3030799 G-T Hetero INTERGENIC
SBS Chr4 20376413 T-C Hetero INTERGENIC
SBS Chr4 26834634 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake04g194300
SBS Chr4 26834635 T-A Hetero NON_SYNONYMOUS_CODING OsKitaake04g194300
SBS Chr4 28087754 A-G Homo INTERGENIC
SBS Chr4 30282700 C-T Hetero INTERGENIC
SBS Chr5 8673820 G-C Hetero INTERGENIC
SBS Chr5 13894561 A-G Hetero INTERGENIC
SBS Chr5 14508633 A-G Hetero INTERGENIC
SBS Chr6 2011619 C-T Homo INTRON
SBS Chr6 3748769 C-G Homo INTERGENIC
SBS Chr6 6492791 T-C Hetero NON_SYNONYMOUS_CODING OsKitaake06g084700
SBS Chr6 7158258 A-G Hetero INTERGENIC
SBS Chr6 13839568 A-G Hetero INTERGENIC
SBS Chr6 18541674 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake06g169300
SBS Chr6 24671519 T-C Hetero INTERGENIC
SBS Chr6 29922138 T-C Hetero INTERGENIC
SBS Chr7 4826713 C-T Hetero SPLICE_SITE_REGION
SBS Chr8 996461 G-A Homo INTERGENIC
SBS Chr8 2670749 G-T Hetero INTERGENIC
SBS Chr8 6966017 G-A Hetero INTERGENIC
SBS Chr8 13007489 G-C Hetero INTRON
SBS Chr8 26522320 T-A Hetero INTERGENIC
SBS Chr9 993271 G-A Hetero INTERGENIC
SBS Chr10 18084817 G-A Hetero INTERGENIC
SBS Chr10 23652661 A-T Hetero INTERGENIC
SBS Chr12 12266215 A-G Homo INTERGENIC
SBS Chr12 22195505 G-T Hetero INTERGENIC
SBS Chr12 25913838 C-G Hetero INTERGENIC

Deletions: 16

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr10 545037 545038 1
Deletion Chr7 1927801 1927805 4
Deletion Chr2 3480874 3480875 1
Deletion Chr11 4367441 4367450 9
Deletion Chr10 5040003 5040010 7
Deletion Chr4 10335753 10335754 1
Deletion Chr3 11402550 11402553 3
Deletion Chr2 13555729 13555739 10
Deletion Chr4 13867487 13867489 2
Deletion Chr2 23216469 23216470 1
Deletion Chr1 23323771 23323781 10 OsKitaake01g223000
Deletion Chr12 23337464 23337465 1
Deletion Chr11 26444467 26444469 2
Deletion Chr7 29401375 29401376 1 OsKitaake07g282800
Deletion Chr2 30915725 30915726 1
Deletion Chr2 35361276 35361286 10

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 30259882 30259885 2
Insertion Chr4 6440389 6440392 2
Insertion Chr4 20651275 20651278 2
Insertion Chr4 10143274 10143276 1
Insertion Chr11 19465609 19465612 2

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 18543134 Chr2 9265880 OsKitaake10g131800

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	2185530	A-G	Hetero	INTERGENIC
SBS	Chr1	5220199	G-A	Hetero	INTERGENIC
SBS	Chr1	11892203	T-C	Hetero	INTERGENIC
SBS	Chr1	14422737	A-T	Hetero	INTERGENIC
SBS	Chr1	17832738	C-T	Hetero	INTERGENIC
SBS	Chr1	40370287	T-A	Hetero	INTERGENIC
SBS	Chr2	2303025	C-G	Hetero	INTERGENIC
SBS	Chr2	6299441	A-T	Hetero	INTERGENIC
SBS	Chr3	6947837	C-A	Homo	INTERGENIC
SBS	Chr3	11622326	T-C	Hetero	INTERGENIC
SBS	Chr3	26994333	T-C	Hetero	INTERGENIC
SBS	Chr3	27057275	C-T	Hetero	INTERGENIC
SBS	Chr3	36623910	G-T	Homo	INTERGENIC
SBS	Chr4	1626955	T-C	Hetero	INTERGENIC
SBS	Chr4	3030799	G-T	Hetero	INTERGENIC
SBS	Chr4	20376413	T-C	Hetero	INTERGENIC
SBS	Chr4	26834634	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g194300
SBS	Chr4	26834635	T-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake04g194300
SBS	Chr4	28087754	A-G	Homo	INTERGENIC
SBS	Chr4	30282700	C-T	Hetero	INTERGENIC
SBS	Chr5	8673820	G-C	Hetero	INTERGENIC
SBS	Chr5	13894561	A-G	Hetero	INTERGENIC
SBS	Chr5	14508633	A-G	Hetero	INTERGENIC
SBS	Chr6	2011619	C-T	Homo	INTRON
SBS	Chr6	3748769	C-G	Homo	INTERGENIC
SBS	Chr6	6492791	T-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g084700
SBS	Chr6	7158258	A-G	Hetero	INTERGENIC
SBS	Chr6	13839568	A-G	Hetero	INTERGENIC
SBS	Chr6	18541674	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake06g169300
SBS	Chr6	24671519	T-C	Hetero	INTERGENIC
SBS	Chr6	29922138	T-C	Hetero	INTERGENIC
SBS	Chr7	4826713	C-T	Hetero	SPLICE_SITE_REGION
SBS	Chr8	996461	G-A	Homo	INTERGENIC
SBS	Chr8	2670749	G-T	Hetero	INTERGENIC
SBS	Chr8	6966017	G-A	Hetero	INTERGENIC
SBS	Chr8	13007489	G-C	Hetero	INTRON
SBS	Chr8	26522320	T-A	Hetero	INTERGENIC
SBS	Chr9	993271	G-A	Hetero	INTERGENIC
SBS	Chr10	18084817	G-A	Hetero	INTERGENIC
SBS	Chr10	23652661	A-T	Hetero	INTERGENIC
SBS	Chr12	12266215	A-G	Homo	INTERGENIC
SBS	Chr12	22195505	G-T	Hetero	INTERGENIC
SBS	Chr12	25913838	C-G	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr10	545037	545038	1
Deletion	Chr7	1927801	1927805	4
Deletion	Chr2	3480874	3480875	1
Deletion	Chr11	4367441	4367450	9
Deletion	Chr10	5040003	5040010	7
Deletion	Chr4	10335753	10335754	1
Deletion	Chr3	11402550	11402553	3
Deletion	Chr2	13555729	13555739	10
Deletion	Chr4	13867487	13867489	2
Deletion	Chr2	23216469	23216470	1
Deletion	Chr1	23323771	23323781	10	OsKitaake01g223000
Deletion	Chr12	23337464	23337465	1
Deletion	Chr11	26444467	26444469	2
Deletion	Chr7	29401375	29401376	1	OsKitaake07g282800
Deletion	Chr2	30915725	30915726	1
Deletion	Chr2	35361276	35361286	10

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr10	18543134	Chr2	9265880	OsKitaake10g131800

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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

Chromosome

Position 2

Number of Genes