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Mutant Information

Mutant Name	FN2479 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2479 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 52

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 637165 T-C Hetero INTERGENIC
SBS Chr1 4951934 A-T Hetero INTERGENIC
SBS Chr1 25475281 C-T Hetero INTERGENIC
SBS Chr1 25475284 T-A Hetero INTERGENIC
SBS Chr1 25475287 G-A Hetero INTERGENIC
SBS Chr1 34866791 G-A Hetero INTERGENIC
SBS Chr2 81489 T-C Homo INTERGENIC
SBS Chr2 17236238 G-A Hetero INTRON
SBS Chr2 21447156 A-G Hetero UTR_5_PRIME
SBS Chr2 22450367 C-T Hetero SYNONYMOUS_CODING
SBS Chr2 23751788 C-T Hetero INTERGENIC
SBS Chr2 24786787 G-T Homo UTR_3_PRIME
SBS Chr2 31639046 A-G Hetero INTERGENIC
SBS Chr3 5095948 G-A Hetero INTERGENIC
SBS Chr3 6460824 C-A Hetero UTR_5_PRIME
SBS Chr3 6460828 G-A Hetero UTR_5_PRIME
SBS Chr3 6460829 C-A Hetero UTR_5_PRIME
SBS Chr3 7211900 G-A Hetero INTERGENIC
SBS Chr3 9365512 T-C Hetero INTERGENIC
SBS Chr3 24391461 C-T Hetero INTRON
SBS Chr3 32901028 T-C Hetero INTERGENIC
SBS Chr4 4075328 C-T Hetero INTERGENIC
SBS Chr4 5955918 A-T Hetero INTERGENIC
SBS Chr4 9577030 C-A Hetero INTERGENIC
SBS Chr4 11250571 G-A Hetero INTERGENIC
SBS Chr4 16223016 A-G Hetero INTERGENIC
SBS Chr4 19423684 C-T Hetero INTERGENIC
SBS Chr4 27979833 G-A Hetero INTRON
SBS Chr4 32072442 C-T Homo INTERGENIC
SBS Chr5 10340283 A-G Hetero INTERGENIC
SBS Chr6 2894359 A-G Hetero INTRON
SBS Chr6 4977761 G-A Hetero INTERGENIC
SBS Chr7 17572725 C-T Hetero INTERGENIC
SBS Chr7 20430847 G-A Homo INTERGENIC
SBS Chr8 1134009 G-C Hetero INTERGENIC
SBS Chr8 1781149 T-C Hetero INTERGENIC
SBS Chr8 19803107 A-C Hetero NON_SYNONYMOUS_CODING OsKitaake08g145900
SBS Chr8 25692897 C-G Hetero INTERGENIC
SBS Chr8 26609981 C-A Hetero INTERGENIC
SBS Chr9 875978 T-G Hetero NON_SYNONYMOUS_CODING OsKitaake09g005600
SBS Chr9 6400690 C-G Hetero INTERGENIC
SBS Chr9 13254588 G-C Hetero INTRON
SBS Chr9 14104208 C-A Hetero INTERGENIC
SBS Chr10 13118962 C-T Hetero INTERGENIC
SBS Chr10 20271778 C-T Hetero INTERGENIC
SBS Chr11 719264 A-G Homo INTERGENIC
SBS Chr11 3061188 T-G Hetero NON_SYNONYMOUS_CODING OsKitaake11g043100
SBS Chr11 18302291 T-A Hetero INTERGENIC
SBS Chr12 9283231 G-A Hetero INTERGENIC
SBS Chr12 12322830 G-A Homo INTERGENIC
SBS Chr12 19175307 C-T Homo INTERGENIC
SBS Chr12 26913767 T-C Hetero INTRON

Deletions: 16

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr4 896785 896787 2 OsKitaake04g006700
Deletion Chr2 1143605 1143606 1
Deletion Chr2 4610363 4610364 1
Deletion Chr4 5590392 5590399 7
Deletion Chr12 7365968 7365984 16
Deletion Chr1 7401764 7401766 2 OsKitaake01g092500
Deletion Chr9 8753653 8753663 10
Deletion Chr8 9627325 9627327 2
Deletion Chr6 10148806 10148813 7
Deletion Chr4 10617861 10617862 1
Deletion Chr6 10916678 10916688 10
Deletion Chr5 17219873 17219879 6
Deletion Chr8 17729647 17729659 12
Deletion Chr2 22445292 22445303 11
Deletion Chr4 27565042 27565057 15
Deletion Chr5 29076320 29076323 3

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr3 32862288 32862291 2
Insertion Chr5 10666261 10666264 2
Insertion Chr9 14509920 14509923 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr1 25027106 25306963 OsKitaake01g242200
Inversion Chr1 25027109 25091430 OsKitaake01g242200

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr9 877051 Chr8 1451851 OsKitaake09g005600
Translocation Chr9 877471 Chr8 1451852 OsKitaake09g005600

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	637165	T-C	Hetero	INTERGENIC
SBS	Chr1	4951934	A-T	Hetero	INTERGENIC
SBS	Chr1	25475281	C-T	Hetero	INTERGENIC
SBS	Chr1	25475284	T-A	Hetero	INTERGENIC
SBS	Chr1	25475287	G-A	Hetero	INTERGENIC
SBS	Chr1	34866791	G-A	Hetero	INTERGENIC
SBS	Chr2	81489	T-C	Homo	INTERGENIC
SBS	Chr2	17236238	G-A	Hetero	INTRON
SBS	Chr2	21447156	A-G	Hetero	UTR_5_PRIME
SBS	Chr2	22450367	C-T	Hetero	SYNONYMOUS_CODING
SBS	Chr2	23751788	C-T	Hetero	INTERGENIC
SBS	Chr2	24786787	G-T	Homo	UTR_3_PRIME
SBS	Chr2	31639046	A-G	Hetero	INTERGENIC
SBS	Chr3	5095948	G-A	Hetero	INTERGENIC
SBS	Chr3	6460824	C-A	Hetero	UTR_5_PRIME
SBS	Chr3	6460828	G-A	Hetero	UTR_5_PRIME
SBS	Chr3	6460829	C-A	Hetero	UTR_5_PRIME
SBS	Chr3	7211900	G-A	Hetero	INTERGENIC
SBS	Chr3	9365512	T-C	Hetero	INTERGENIC
SBS	Chr3	24391461	C-T	Hetero	INTRON
SBS	Chr3	32901028	T-C	Hetero	INTERGENIC
SBS	Chr4	4075328	C-T	Hetero	INTERGENIC
SBS	Chr4	5955918	A-T	Hetero	INTERGENIC
SBS	Chr4	9577030	C-A	Hetero	INTERGENIC
SBS	Chr4	11250571	G-A	Hetero	INTERGENIC
SBS	Chr4	16223016	A-G	Hetero	INTERGENIC
SBS	Chr4	19423684	C-T	Hetero	INTERGENIC
SBS	Chr4	27979833	G-A	Hetero	INTRON
SBS	Chr4	32072442	C-T	Homo	INTERGENIC
SBS	Chr5	10340283	A-G	Hetero	INTERGENIC
SBS	Chr6	2894359	A-G	Hetero	INTRON
SBS	Chr6	4977761	G-A	Hetero	INTERGENIC
SBS	Chr7	17572725	C-T	Hetero	INTERGENIC
SBS	Chr7	20430847	G-A	Homo	INTERGENIC
SBS	Chr8	1134009	G-C	Hetero	INTERGENIC
SBS	Chr8	1781149	T-C	Hetero	INTERGENIC
SBS	Chr8	19803107	A-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake08g145900
SBS	Chr8	25692897	C-G	Hetero	INTERGENIC
SBS	Chr8	26609981	C-A	Hetero	INTERGENIC
SBS	Chr9	875978	T-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake09g005600
SBS	Chr9	6400690	C-G	Hetero	INTERGENIC
SBS	Chr9	13254588	G-C	Hetero	INTRON
SBS	Chr9	14104208	C-A	Hetero	INTERGENIC
SBS	Chr10	13118962	C-T	Hetero	INTERGENIC
SBS	Chr10	20271778	C-T	Hetero	INTERGENIC
SBS	Chr11	719264	A-G	Homo	INTERGENIC
SBS	Chr11	3061188	T-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g043100
SBS	Chr11	18302291	T-A	Hetero	INTERGENIC
SBS	Chr12	9283231	G-A	Hetero	INTERGENIC
SBS	Chr12	12322830	G-A	Homo	INTERGENIC
SBS	Chr12	19175307	C-T	Homo	INTERGENIC
SBS	Chr12	26913767	T-C	Hetero	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr4	896785	896787	2	OsKitaake04g006700
Deletion	Chr2	1143605	1143606	1
Deletion	Chr2	4610363	4610364	1
Deletion	Chr4	5590392	5590399	7
Deletion	Chr12	7365968	7365984	16
Deletion	Chr1	7401764	7401766	2	OsKitaake01g092500
Deletion	Chr9	8753653	8753663	10
Deletion	Chr8	9627325	9627327	2
Deletion	Chr6	10148806	10148813	7
Deletion	Chr4	10617861	10617862	1
Deletion	Chr6	10916678	10916688	10
Deletion	Chr5	17219873	17219879	6
Deletion	Chr8	17729647	17729659	12
Deletion	Chr2	22445292	22445303	11
Deletion	Chr4	27565042	27565057	15
Deletion	Chr5	29076320	29076323	3

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr1	25027106	25306963	OsKitaake01g242200
Inversion	Chr1	25027109	25091430	OsKitaake01g242200

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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