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Mutant Information

Mutant Name	FN1293-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1293-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) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 27

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 14163010 A-T Hetero INTERGENIC
SBS Chr1 38176621 A-G Homo INTRON
SBS Chr2 414260 A-C Hetero INTERGENIC
SBS Chr2 4380671 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake02g061200
SBS Chr2 10247837 G-A Homo INTERGENIC
SBS Chr2 34641448 A-G Homo INTERGENIC
SBS Chr3 2371900 T-C Homo INTERGENIC
SBS Chr3 3127814 C-T Homo INTERGENIC
SBS Chr3 8160943 T-A Homo INTRON
SBS Chr3 24153159 T-A Homo INTERGENIC
SBS Chr3 24153160 G-A Homo INTERGENIC
SBS Chr4 9602645 A-T Hetero INTERGENIC
SBS Chr4 24356153 C-A Hetero INTERGENIC
SBS Chr5 2960571 G-A Hetero INTERGENIC
SBS Chr5 4512256 T-C Hetero INTERGENIC
SBS Chr5 6265345 A-T Hetero INTERGENIC
SBS Chr7 9581417 A-T Hetero INTERGENIC
SBS Chr7 14285611 C-T Hetero INTERGENIC
SBS Chr7 22356631 G-A Homo INTERGENIC
SBS Chr8 13201992 G-A Hetero INTERGENIC
SBS Chr8 24621286 C-T Homo UTR_3_PRIME
SBS Chr10 13334435 G-A Hetero INTERGENIC
SBS Chr11 3815511 G-A Hetero INTERGENIC
SBS Chr11 13323623 C-T Hetero INTERGENIC
SBS Chr11 15096610 C-T Hetero INTERGENIC
SBS Chr12 25743283 G-T Hetero INTERGENIC
SBS Chr12 25743284 C-T Hetero INTERGENIC

Deletions: 16

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 2434227 2434245 18
Deletion Chr6 6874787 6874799 12
Deletion Chr10 7801124 7801134 10
Deletion Chr7 9464287 9464290 3
Deletion Chr3 10119887 10119894 7
Deletion Chr1 10474911 10474912 1
Deletion Chr4 11498268 11498276 8
Deletion Chr5 15208905 15208907 2
Deletion Chr7 15671721 15671731 10
Deletion Chr12 17238951 17238952 1
Deletion Chr4 17961328 17961342 14
Deletion Chr9 19544001 19673000 128999 18
Deletion Chr11 20132444 20132447 3
Deletion Chr3 24208811 24208823 12
Deletion Chr12 26505219 26505221 2
Deletion Chr1 36429088 36429089 1

Insertions: 2

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr10 12301892 12301895 2
Insertion Chr4 18215924 18215926 1

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr1 25038752 25793844 2
Inversion Chr1 25038755 25793847 2

Translocations: 6

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr8 1806790 Chr7 10219465 OsKitaake08g227800
Translocation Chr8 1808400 Chr7 10219474 OsKitaake08g228000
Translocation Chr12 26488146 Chr1 13417630 OsKitaake12g219600
Translocation Chr12 26488149 Chr1 13417346 OsKitaake12g219600
Translocation Chr8 28614879 Chr2 2732714 OsKitaake08g245400
Translocation Chr8 28622604 Chr2 2732712

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	14163010	A-T	Hetero	INTERGENIC
SBS	Chr1	38176621	A-G	Homo	INTRON
SBS	Chr2	414260	A-C	Hetero	INTERGENIC
SBS	Chr2	4380671	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake02g061200
SBS	Chr2	10247837	G-A	Homo	INTERGENIC
SBS	Chr2	34641448	A-G	Homo	INTERGENIC
SBS	Chr3	2371900	T-C	Homo	INTERGENIC
SBS	Chr3	3127814	C-T	Homo	INTERGENIC
SBS	Chr3	8160943	T-A	Homo	INTRON
SBS	Chr3	24153159	T-A	Homo	INTERGENIC
SBS	Chr3	24153160	G-A	Homo	INTERGENIC
SBS	Chr4	9602645	A-T	Hetero	INTERGENIC
SBS	Chr4	24356153	C-A	Hetero	INTERGENIC
SBS	Chr5	2960571	G-A	Hetero	INTERGENIC
SBS	Chr5	4512256	T-C	Hetero	INTERGENIC
SBS	Chr5	6265345	A-T	Hetero	INTERGENIC
SBS	Chr7	9581417	A-T	Hetero	INTERGENIC
SBS	Chr7	14285611	C-T	Hetero	INTERGENIC
SBS	Chr7	22356631	G-A	Homo	INTERGENIC
SBS	Chr8	13201992	G-A	Hetero	INTERGENIC
SBS	Chr8	24621286	C-T	Homo	UTR_3_PRIME
SBS	Chr10	13334435	G-A	Hetero	INTERGENIC
SBS	Chr11	3815511	G-A	Hetero	INTERGENIC
SBS	Chr11	13323623	C-T	Hetero	INTERGENIC
SBS	Chr11	15096610	C-T	Hetero	INTERGENIC
SBS	Chr12	25743283	G-T	Hetero	INTERGENIC
SBS	Chr12	25743284	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	2434227	2434245	18
Deletion	Chr6	6874787	6874799	12
Deletion	Chr10	7801124	7801134	10
Deletion	Chr7	9464287	9464290	3
Deletion	Chr3	10119887	10119894	7
Deletion	Chr1	10474911	10474912	1
Deletion	Chr4	11498268	11498276	8
Deletion	Chr5	15208905	15208907	2
Deletion	Chr7	15671721	15671731	10
Deletion	Chr12	17238951	17238952	1
Deletion	Chr4	17961328	17961342	14
Deletion	Chr9	19544001	19673000	128999	18
Deletion	Chr11	20132444	20132447	3
Deletion	Chr3	24208811	24208823	12
Deletion	Chr12	26505219	26505221	2
Deletion	Chr1	36429088	36429089	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	25038752	25793844	2
Inversion	Chr1	25038755	25793847	2

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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