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Mutant Information

Mutant Name	FN1749-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1749-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000326 (Leaf Color) = Normal TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 35

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 12584821 C-T Homo INTERGENIC
SBS Chr1 20637987 G-A Homo INTERGENIC
SBS Chr1 28801767 A-G Hetero INTERGENIC
SBS Chr1 29026788 T-G Hetero INTRON
SBS Chr1 29361743 C-A Hetero INTRON
SBS Chr1 29523256 C-A Hetero INTERGENIC
SBS Chr1 31639880 A-T Hetero INTRON
SBS Chr2 15217335 C-T Homo INTERGENIC
SBS Chr2 18454143 T-A Homo UTR_3_PRIME
SBS Chr2 18456268 G-T Homo INTRON
SBS Chr3 35821677 T-A Hetero INTERGENIC
SBS Chr4 14002195 T-A Hetero INTERGENIC
SBS Chr4 20550320 C-A Hetero INTERGENIC
SBS Chr5 19666025 T-A Hetero INTRON
SBS Chr5 25830522 C-T Homo NON_SYNONYMOUS_CODING OsKitaake05g227500
SBS Chr5 28913415 G-A Hetero INTERGENIC
SBS Chr6 3547863 T-C Homo INTERGENIC
SBS Chr6 4889365 C-G Homo INTERGENIC
SBS Chr6 14480256 C-A Homo INTERGENIC
SBS Chr6 16376323 G-T Homo INTERGENIC
SBS Chr7 14544497 G-A Hetero INTERGENIC
SBS Chr7 24453225 T-C Hetero INTERGENIC
SBS Chr8 3501309 A-T Hetero INTERGENIC
SBS Chr9 3931305 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake09g020900
SBS Chr9 5274450 T-C Hetero INTERGENIC
SBS Chr9 9473115 A-T Hetero INTERGENIC
SBS Chr9 11607139 A-C Hetero INTERGENIC
SBS Chr9 13329926 C-A Hetero INTERGENIC
SBS Chr9 19491219 C-A Homo INTRON
SBS Chr10 2840734 C-A Hetero INTERGENIC
SBS Chr11 11684067 T-G Homo INTERGENIC
SBS Chr11 29159158 T-C Hetero NON_SYNONYMOUS_CODING OsKitaake11g239100
SBS Chr12 14205444 G-A Homo INTERGENIC
SBS Chr12 16069808 G-A Homo INTERGENIC
SBS Chr12 16069809 G-A Homo INTERGENIC

Deletions: 43

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr9 631001 661000 29999 OsKitaake09g004500
Deletion Chr2 1703001 1737000 33999 4
Deletion Chr1 2168722 2168723 1
Deletion Chr7 2496001 2520000 23999 3
Deletion Chr7 2609001 2622000 12999 OsKitaake07g034350
Deletion Chr7 3053001 3078000 24999 5
Deletion Chr3 4010001 4033000 22999 3
Deletion Chr8 5843001 5876000 32999 2
Deletion Chr11 6912001 6938000 25999 3
Deletion Chr9 7548001 7575000 26999 OsKitaake09g042900
Deletion Chr10 7615889 7615898 9
Deletion Chr7 7865623 7865627 4
Deletion Chr5 8274001 8302000 27999 2
Deletion Chr6 8626001 8639000 12999
Deletion Chr1 10209001 10236000 26999 3
Deletion Chr9 10891001 10939000 47999 4
Deletion Chr11 11165001 11183000 17999
Deletion Chr11 11498683 11498685 2
Deletion Chr11 11838159 11838177 18
Deletion Chr10 12143394 12143397 3
Deletion Chr12 12583001 12613000 29999 5
Deletion Chr12 13172001 13221000 48999 9
Deletion Chr12 15471001 15489000 17999 OsKitaake12g120100
Deletion Chr1 16868896 16868903 7
Deletion Chr10 16976001 16999000 22999 OsKitaake10g116500
Deletion Chr1 18914001 18946000 31999 3
Deletion Chr11 19062001 19116000 53999 2
Deletion Chr2 19128001 19172000 43999 8
Deletion Chr4 19331001 19373000 41999 3
Deletion Chr2 19407001 19437000 29999 6
Deletion Chr10 21704001 21728000 23999 OsKitaake10g174000
Deletion Chr3 23142001 23200000 57999
Deletion Chr5 23251001 23371000 119999 13
Deletion Chr1 24464001 24485000 20999 2
Deletion Chr7 24541001 24570000 28999 3
Deletion Chr8 25333501 25333502 1 OsKitaake08g198300
Deletion Chr3 25349001 25386000 36999 OsKitaake03g268000
Deletion Chr8 25523795 25523801 6
Deletion Chr12 25716001 25750000 33999 4
Deletion Chr12 26019001 26065000 45999 4
Deletion Chr4 26344269 26344275 6
Deletion Chr4 31352604 31352605 1
Deletion Chr1 41322001 41371000 48999 2

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 996527 996530 2
Insertion Chr5 27717863 27717869 5
Insertion Chr11 9542527 9542530 2
Insertion Chr11 20206453 20206456 2

Inversions: 2

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr8 2574856 3324119
Inversion Chr8 2574896 3324203

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr7 145650 Chr4 2427547
Translocation Chr7 145657 Chr4 2427543

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	12584821	C-T	Homo	INTERGENIC
SBS	Chr1	20637987	G-A	Homo	INTERGENIC
SBS	Chr1	28801767	A-G	Hetero	INTERGENIC
SBS	Chr1	29026788	T-G	Hetero	INTRON
SBS	Chr1	29361743	C-A	Hetero	INTRON
SBS	Chr1	29523256	C-A	Hetero	INTERGENIC
SBS	Chr1	31639880	A-T	Hetero	INTRON
SBS	Chr2	15217335	C-T	Homo	INTERGENIC
SBS	Chr2	18454143	T-A	Homo	UTR_3_PRIME
SBS	Chr2	18456268	G-T	Homo	INTRON
SBS	Chr3	35821677	T-A	Hetero	INTERGENIC
SBS	Chr4	14002195	T-A	Hetero	INTERGENIC
SBS	Chr4	20550320	C-A	Hetero	INTERGENIC
SBS	Chr5	19666025	T-A	Hetero	INTRON
SBS	Chr5	25830522	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake05g227500
SBS	Chr5	28913415	G-A	Hetero	INTERGENIC
SBS	Chr6	3547863	T-C	Homo	INTERGENIC
SBS	Chr6	4889365	C-G	Homo	INTERGENIC
SBS	Chr6	14480256	C-A	Homo	INTERGENIC
SBS	Chr6	16376323	G-T	Homo	INTERGENIC
SBS	Chr7	14544497	G-A	Hetero	INTERGENIC
SBS	Chr7	24453225	T-C	Hetero	INTERGENIC
SBS	Chr8	3501309	A-T	Hetero	INTERGENIC
SBS	Chr9	3931305	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake09g020900
SBS	Chr9	5274450	T-C	Hetero	INTERGENIC
SBS	Chr9	9473115	A-T	Hetero	INTERGENIC
SBS	Chr9	11607139	A-C	Hetero	INTERGENIC
SBS	Chr9	13329926	C-A	Hetero	INTERGENIC
SBS	Chr9	19491219	C-A	Homo	INTRON
SBS	Chr10	2840734	C-A	Hetero	INTERGENIC
SBS	Chr11	11684067	T-G	Homo	INTERGENIC
SBS	Chr11	29159158	T-C	Hetero	NON_SYNONYMOUS_CODING	OsKitaake11g239100
SBS	Chr12	14205444	G-A	Homo	INTERGENIC
SBS	Chr12	16069808	G-A	Homo	INTERGENIC
SBS	Chr12	16069809	G-A	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr9	631001	661000	29999	OsKitaake09g004500
Deletion	Chr2	1703001	1737000	33999	4
Deletion	Chr1	2168722	2168723	1
Deletion	Chr7	2496001	2520000	23999	3
Deletion	Chr7	2609001	2622000	12999	OsKitaake07g034350
Deletion	Chr7	3053001	3078000	24999	5
Deletion	Chr3	4010001	4033000	22999	3
Deletion	Chr8	5843001	5876000	32999	2
Deletion	Chr11	6912001	6938000	25999	3
Deletion	Chr9	7548001	7575000	26999	OsKitaake09g042900
Deletion	Chr10	7615889	7615898	9
Deletion	Chr7	7865623	7865627	4
Deletion	Chr5	8274001	8302000	27999	2
Deletion	Chr6	8626001	8639000	12999
Deletion	Chr1	10209001	10236000	26999	3
Deletion	Chr9	10891001	10939000	47999	4
Deletion	Chr11	11165001	11183000	17999
Deletion	Chr11	11498683	11498685	2
Deletion	Chr11	11838159	11838177	18
Deletion	Chr10	12143394	12143397	3
Deletion	Chr12	12583001	12613000	29999	5
Deletion	Chr12	13172001	13221000	48999	9
Deletion	Chr12	15471001	15489000	17999	OsKitaake12g120100
Deletion	Chr1	16868896	16868903	7
Deletion	Chr10	16976001	16999000	22999	OsKitaake10g116500
Deletion	Chr1	18914001	18946000	31999	3
Deletion	Chr11	19062001	19116000	53999	2
Deletion	Chr2	19128001	19172000	43999	8
Deletion	Chr4	19331001	19373000	41999	3
Deletion	Chr2	19407001	19437000	29999	6
Deletion	Chr10	21704001	21728000	23999	OsKitaake10g174000
Deletion	Chr3	23142001	23200000	57999
Deletion	Chr5	23251001	23371000	119999	13
Deletion	Chr1	24464001	24485000	20999	2
Deletion	Chr7	24541001	24570000	28999	3
Deletion	Chr8	25333501	25333502	1	OsKitaake08g198300
Deletion	Chr3	25349001	25386000	36999	OsKitaake03g268000
Deletion	Chr8	25523795	25523801	6
Deletion	Chr12	25716001	25750000	33999	4
Deletion	Chr12	26019001	26065000	45999	4
Deletion	Chr4	26344269	26344275	6
Deletion	Chr4	31352604	31352605	1
Deletion	Chr1	41322001	41371000	48999	2

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr8	2574856	3324119
Inversion	Chr8	2574896	3324203

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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