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Mutant Information

Mutant Name	W481-5-1 [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download W481-5-1 Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Low (Between 25% and 75%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 33

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 19815322 G-A Homo INTERGENIC
SBS Chr2 3389016 G-T Hetero INTRON
SBS Chr2 3389019 G-T Hetero INTRON
SBS Chr2 12269842 G-A Homo INTERGENIC
SBS Chr2 14159773 C-A Hetero INTERGENIC
SBS Chr2 33153226 G-A Homo INTERGENIC
SBS Chr3 1827756 G-A Homo UTR_3_PRIME
SBS Chr3 12181742 A-T Hetero INTERGENIC
SBS Chr3 15841671 C-G Hetero INTERGENIC
SBS Chr4 13165699 A-G Homo INTERGENIC
SBS Chr4 22134517 C-A Homo INTERGENIC
SBS Chr4 22134531 G-A Homo INTERGENIC
SBS Chr4 24429961 T-G Hetero INTERGENIC
SBS Chr4 30656663 T-C Hetero INTERGENIC
SBS Chr5 18774235 G-C Hetero UTR_5_PRIME
SBS Chr6 8140012 C-T Hetero INTERGENIC
SBS Chr6 13157106 G-A Homo INTERGENIC
SBS Chr6 20428664 C-T Homo INTERGENIC
SBS Chr6 25405449 C-A Homo INTERGENIC
SBS Chr7 6533843 T-G Homo INTERGENIC
SBS Chr7 11622181 C-G Hetero UTR_5_PRIME
SBS Chr7 26691325 A-G Homo NON_SYNONYMOUS_CODING OsKitaake07g248100
SBS Chr8 7512775 C-T Hetero INTERGENIC
SBS Chr8 21694844 T-C Homo INTERGENIC
SBS Chr8 27201665 C-T Homo INTRON
SBS Chr9 2546238 T-G Homo INTERGENIC
SBS Chr9 12827057 C-T Hetero INTERGENIC
SBS Chr10 19173854 G-A Hetero INTERGENIC
SBS Chr11 3733932 A-G Homo INTRON
SBS Chr11 8524303 G-T Homo NON_SYNONYMOUS_CODING OsKitaake11g092500
SBS Chr11 11886891 C-T Homo INTERGENIC
SBS Chr11 16177147 A-G Homo INTERGENIC
SBS Chr12 25353571 G-A Hetero INTRON

Deletions: 23

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr6 660379 660391 12 OsKitaake06g006200
Deletion Chr10 846087 846095 8
Deletion Chr4 1277001 1277010 9
Deletion Chr5 1880125 1880127 2 OsKitaake05g021000
Deletion Chr4 3166716 3166718 2 OsKitaake04g016775
Deletion Chr1 3948600 3948604 4 OsKitaake01g053300
Deletion Chr6 5030644 5030649 5
Deletion Chr11 5681363 5681364 1
Deletion Chr12 8717638 8717639 1
Deletion Chr10 9694237 9694241 4
Deletion Chr1 9914260 9914263 3
Deletion Chr2 10976856 10976857 1
Deletion Chr10 18143195 18143206 11
Deletion Chr10 19752370 19752378 8
Deletion Chr12 22118001 22153000 34999 4
Deletion Chr3 22885951 22885952 1
Deletion Chr12 23841194 23841204 10
Deletion Chr1 25611422 25611426 4
Deletion Chr3 25862452 25862453 1
Deletion Chr7 27121349 27121350 1
Deletion Chr1 33884551 33884552 1
Deletion Chr3 35818487 35818489 2
Deletion Chr1 43309389 43309390 1

Insertions: 5

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr4 15713390 15713394 3
Insertion Chr6 8379070 8379074 3
Insertion Chr8 26984570 26984576 5
Insertion Chr5 15513322 15513324 1
Insertion Chr9 2754476 2754478 1

Inversions: 1

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr2 3209321 3331189

Translocations: 3

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr7 27788124 Chr2 31965638 OsKitaake07g259600
Translocation Chr7 29039529 Chr1 9615183 OsKitaake01g123200
Translocation Chr7 29039530 Chr1 9615189 OsKitaake01g123200

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	19815322	G-A	Homo	INTERGENIC
SBS	Chr2	3389016	G-T	Hetero	INTRON
SBS	Chr2	3389019	G-T	Hetero	INTRON
SBS	Chr2	12269842	G-A	Homo	INTERGENIC
SBS	Chr2	14159773	C-A	Hetero	INTERGENIC
SBS	Chr2	33153226	G-A	Homo	INTERGENIC
SBS	Chr3	1827756	G-A	Homo	UTR_3_PRIME
SBS	Chr3	12181742	A-T	Hetero	INTERGENIC
SBS	Chr3	15841671	C-G	Hetero	INTERGENIC
SBS	Chr4	13165699	A-G	Homo	INTERGENIC
SBS	Chr4	22134517	C-A	Homo	INTERGENIC
SBS	Chr4	22134531	G-A	Homo	INTERGENIC
SBS	Chr4	24429961	T-G	Hetero	INTERGENIC
SBS	Chr4	30656663	T-C	Hetero	INTERGENIC
SBS	Chr5	18774235	G-C	Hetero	UTR_5_PRIME
SBS	Chr6	8140012	C-T	Hetero	INTERGENIC
SBS	Chr6	13157106	G-A	Homo	INTERGENIC
SBS	Chr6	20428664	C-T	Homo	INTERGENIC
SBS	Chr6	25405449	C-A	Homo	INTERGENIC
SBS	Chr7	6533843	T-G	Homo	INTERGENIC
SBS	Chr7	11622181	C-G	Hetero	UTR_5_PRIME
SBS	Chr7	26691325	A-G	Homo	NON_SYNONYMOUS_CODING	OsKitaake07g248100
SBS	Chr8	7512775	C-T	Hetero	INTERGENIC
SBS	Chr8	21694844	T-C	Homo	INTERGENIC
SBS	Chr8	27201665	C-T	Homo	INTRON
SBS	Chr9	2546238	T-G	Homo	INTERGENIC
SBS	Chr9	12827057	C-T	Hetero	INTERGENIC
SBS	Chr10	19173854	G-A	Hetero	INTERGENIC
SBS	Chr11	3733932	A-G	Homo	INTRON
SBS	Chr11	8524303	G-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake11g092500
SBS	Chr11	11886891	C-T	Homo	INTERGENIC
SBS	Chr11	16177147	A-G	Homo	INTERGENIC
SBS	Chr12	25353571	G-A	Hetero	INTRON

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr6	660379	660391	12	OsKitaake06g006200
Deletion	Chr10	846087	846095	8
Deletion	Chr4	1277001	1277010	9
Deletion	Chr5	1880125	1880127	2	OsKitaake05g021000
Deletion	Chr4	3166716	3166718	2	OsKitaake04g016775
Deletion	Chr1	3948600	3948604	4	OsKitaake01g053300
Deletion	Chr6	5030644	5030649	5
Deletion	Chr11	5681363	5681364	1
Deletion	Chr12	8717638	8717639	1
Deletion	Chr10	9694237	9694241	4
Deletion	Chr1	9914260	9914263	3
Deletion	Chr2	10976856	10976857	1
Deletion	Chr10	18143195	18143206	11
Deletion	Chr10	19752370	19752378	8
Deletion	Chr12	22118001	22153000	34999	4
Deletion	Chr3	22885951	22885952	1
Deletion	Chr12	23841194	23841204	10
Deletion	Chr1	25611422	25611426	4
Deletion	Chr3	25862452	25862453	1
Deletion	Chr7	27121349	27121350	1
Deletion	Chr1	33884551	33884552	1
Deletion	Chr3	35818487	35818489	2
Deletion	Chr1	43309389	43309390	1

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr2	3209321	3331189

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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