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Mutant Information

Mutant Name	FN1461-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1461-S Alignment File
Seed Availability	Yes [Order Seeds]

Variant Information

Single base substitutions: 42

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 1390188 G-T Homo UTR_3_PRIME
SBS Chr1 3260962 A-T Homo NON_SYNONYMOUS_CODING OsKitaake01g042700
SBS Chr1 5132667 C-T Homo INTERGENIC
SBS Chr1 10940260 G-A Hetero INTERGENIC
SBS Chr1 15739905 G-T Hetero UTR_3_PRIME
SBS Chr1 18898662 G-T Hetero INTERGENIC
SBS Chr1 24935853 C-T Homo INTERGENIC
SBS Chr2 7270433 C-T Hetero INTERGENIC
SBS Chr2 9665436 G-T Hetero SYNONYMOUS_CODING
SBS Chr2 17837107 C-T Homo INTERGENIC
SBS Chr2 31605343 C-T Hetero INTERGENIC
SBS Chr2 34471443 C-T Hetero INTERGENIC
SBS Chr3 158756 A-G Hetero UTR_3_PRIME
SBS Chr3 21474698 T-C Hetero INTERGENIC
SBS Chr3 31305442 C-T Homo INTRON
SBS Chr4 2122566 C-T Hetero INTERGENIC
SBS Chr4 10328945 G-T Homo INTERGENIC
SBS Chr4 26018976 G-C Homo INTERGENIC
SBS Chr5 2891525 A-T Hetero INTRON
SBS Chr5 4511884 G-A Hetero UTR_5_PRIME
SBS Chr5 4511886 G-A Hetero UTR_5_PRIME
SBS Chr5 5063141 G-A Hetero INTERGENIC
SBS Chr5 12814724 G-A Hetero INTERGENIC
SBS Chr6 5875644 T-A Hetero INTERGENIC
SBS Chr6 11461906 C-A Hetero INTERGENIC
SBS Chr6 17752885 G-C Homo INTERGENIC
SBS Chr6 23679111 G-T Hetero START_GAINED
SBS Chr6 29264820 C-T Hetero INTERGENIC
SBS Chr7 8476191 A-G Homo SYNONYMOUS_CODING
SBS Chr7 26802485 G-A Hetero INTERGENIC
SBS Chr8 6902137 T-C Hetero INTERGENIC
SBS Chr8 13181118 T-C Hetero INTERGENIC
SBS Chr8 14721909 G-C Hetero INTERGENIC
SBS Chr8 18867316 T-C Hetero INTERGENIC
SBS Chr8 18867318 G-A Hetero INTERGENIC
SBS Chr8 22783596 A-T Hetero INTRON
SBS Chr8 25667308 A-T Homo INTERGENIC
SBS Chr9 10181629 C-T Hetero INTRON
SBS Chr10 7419023 G-A Hetero INTERGENIC
SBS Chr10 16157814 C-A Hetero INTRON
SBS Chr10 22759412 G-T Hetero INTERGENIC
SBS Chr11 12008222 C-T Homo UTR_5_PRIME

Deletions: 82

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 167001 198000 30999 9
Deletion Chr2 596001 611000 14999 OsKitaake02g009000
Deletion Chr6 758001 780000 21999 OsKitaake06g007600
Deletion Chr8 837001 846000 8999
Deletion Chr8 915001 941000 25999 OsKitaake08g012200
Deletion Chr9 1146001 1159000 12999 OsKitaake09g006900
Deletion Chr9 1602001 1617000 14999 OsKitaake09g009200
Deletion Chr3 1675001 1690000 14999 OsKitaake03g023750
Deletion Chr7 1786001 1800000 13999
Deletion Chr5 2555001 2568000 12999 OsKitaake05g029000
Deletion Chr3 2680001 2695000 14999 OsKitaake03g038200
Deletion Chr7 2835537 2835539 2
Deletion Chr7 3169001 3189000 19999 2
Deletion Chr8 3211001 3230000 18999 OsKitaake08g036200
Deletion Chr5 3370001 3421000 50999 7
Deletion Chr9 3504001 3515000 10999 OsKitaake09g018000
Deletion Chr6 3607954 3607958 4
Deletion Chr8 3673001 3684000 10999
Deletion Chr6 4683431 4683434 3
Deletion Chr7 4794001 4810000 15999 2
Deletion Chr4 4884001 4896000 11999 OsKitaake04g022200
Deletion Chr8 5298001 5309000 10999 2
Deletion Chr8 5415001 5446000 30999 4
Deletion Chr9 5735001 5743000 7999 OsKitaake09g032700
Deletion Chr2 5805001 5823000 17999 OsKitaake02g080100
Deletion Chr3 6082001 6109000 26999 2
Deletion Chr4 6733001 6745000 11999
Deletion Chr9 7835001 7849000 13999 3
Deletion Chr8 7857001 7874000 16999
Deletion Chr9 8758001 8780000 21999 OsKitaake09g051400
Deletion Chr2 9328001 9339000 10999 OsKitaake02g116000
Deletion Chr2 10582001 10590000 7999 OsKitaake02g125100
Deletion Chr7 10730001 10747000 16999 2
Deletion Chr1 11300577 11300578 1
Deletion Chr12 11331001 11353000 21999 OsKitaake12g102301
Deletion Chr11 11379001 11390000 10999
Deletion Chr2 11539001 11550000 10999
Deletion Chr7 12141716 12141718 2
Deletion Chr2 12162001 12173000 10999 2
Deletion Chr5 12519001 12556000 36999
Deletion Chr9 12612001 12620000 7999
Deletion Chr8 12886276 12886281 5
Deletion Chr12 13002001 13017000 14999
Deletion Chr7 13063001 13074000 10999
Deletion Chr9 13360001 13380000 19999 2
Deletion Chr11 13411001 13427000 15999 OsKitaake11g115300
Deletion Chr3 15541001 15584000 42999
Deletion Chr2 16067001 16118000 50999 OsKitaake02g166300
Deletion Chr2 16305001 16320000 14999 OsKitaake02g167700
Deletion Chr11 16360001 16369000 8999 2
Deletion Chr8 16561001 16581000 19999 4
Deletion Chr1 16665001 16688000 22999 OsKitaake01g177400
Deletion Chr4 17092001 17102000 9999 OsKitaake04g083400
Deletion Chr12 17997301 17997302 1 OsKitaake12g132300
Deletion Chr3 18177590 18177591 1 OsKitaake03g221700
Deletion Chr6 18355001 18380000 24999 OsKitaake06g168100
Deletion Chr9 18513717 18513726 9
Deletion Chr10 18688001 18711000 22999 3
Deletion Chr3 19997001 20020000 22999 OsKitaake03g230101
Deletion Chr3 20254001 20287000 32999
Deletion Chr3 20878001 20890000 11999 2
Deletion Chr4 21039001 21066000 26999 5
Deletion Chr2 21457197 21457198 1
Deletion Chr12 21620001 21632000 11999
Deletion Chr10 23133001 23163000 29999 OsKitaake10g195250
Deletion Chr6 24011001 24053000 41999 2
Deletion Chr12 24374001 24399000 24999 4
Deletion Chr11 24523001 24547000 23999 2
Deletion Chr12 25098001 25109000 10999 2
Deletion Chr2 25209403 25209405 2
Deletion Chr7 26850001 26860000 9999 OsKitaake07g250200
Deletion Chr7 27673001 27685000 11999 2
Deletion Chr6 27777001 27790000 12999
Deletion Chr5 28594465 28594468 3
Deletion Chr3 28649001 28669000 19999
Deletion Chr3 31019001 31031000 11999 OsKitaake03g325700
Deletion Chr2 31611001 31629000 17999 OsKitaake02g321880
Deletion Chr2 32160001 32188000 27999 2
Deletion Chr4 32808001 32837000 28999 4
Deletion Chr1 33383365 33383369 4
Deletion Chr1 34674124 34674128 4
Deletion Chr1 41459001 41483000 23999 OsKitaake01g452800

Insertions: 4

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr5 14569030 14569033 2
Insertion Chr6 5878477 5878480 2
Insertion Chr10 13391073 13391076 2
Insertion Chr2 36579018 36579020 1 OsKitaake02g389100

Translocations: 2

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr7 19159746 Chr1 3261098 2
Translocation Chr7 19159857 Chr1 3261081 2

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	1390188	G-T	Homo	UTR_3_PRIME
SBS	Chr1	3260962	A-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g042700
SBS	Chr1	5132667	C-T	Homo	INTERGENIC
SBS	Chr1	10940260	G-A	Hetero	INTERGENIC
SBS	Chr1	15739905	G-T	Hetero	UTR_3_PRIME
SBS	Chr1	18898662	G-T	Hetero	INTERGENIC
SBS	Chr1	24935853	C-T	Homo	INTERGENIC
SBS	Chr2	7270433	C-T	Hetero	INTERGENIC
SBS	Chr2	9665436	G-T	Hetero	SYNONYMOUS_CODING
SBS	Chr2	17837107	C-T	Homo	INTERGENIC
SBS	Chr2	31605343	C-T	Hetero	INTERGENIC
SBS	Chr2	34471443	C-T	Hetero	INTERGENIC
SBS	Chr3	158756	A-G	Hetero	UTR_3_PRIME
SBS	Chr3	21474698	T-C	Hetero	INTERGENIC
SBS	Chr3	31305442	C-T	Homo	INTRON
SBS	Chr4	2122566	C-T	Hetero	INTERGENIC
SBS	Chr4	10328945	G-T	Homo	INTERGENIC
SBS	Chr4	26018976	G-C	Homo	INTERGENIC
SBS	Chr5	2891525	A-T	Hetero	INTRON
SBS	Chr5	4511884	G-A	Hetero	UTR_5_PRIME
SBS	Chr5	4511886	G-A	Hetero	UTR_5_PRIME
SBS	Chr5	5063141	G-A	Hetero	INTERGENIC
SBS	Chr5	12814724	G-A	Hetero	INTERGENIC
SBS	Chr6	5875644	T-A	Hetero	INTERGENIC
SBS	Chr6	11461906	C-A	Hetero	INTERGENIC
SBS	Chr6	17752885	G-C	Homo	INTERGENIC
SBS	Chr6	23679111	G-T	Hetero	START_GAINED
SBS	Chr6	29264820	C-T	Hetero	INTERGENIC
SBS	Chr7	8476191	A-G	Homo	SYNONYMOUS_CODING
SBS	Chr7	26802485	G-A	Hetero	INTERGENIC
SBS	Chr8	6902137	T-C	Hetero	INTERGENIC
SBS	Chr8	13181118	T-C	Hetero	INTERGENIC
SBS	Chr8	14721909	G-C	Hetero	INTERGENIC
SBS	Chr8	18867316	T-C	Hetero	INTERGENIC
SBS	Chr8	18867318	G-A	Hetero	INTERGENIC
SBS	Chr8	22783596	A-T	Hetero	INTRON
SBS	Chr8	25667308	A-T	Homo	INTERGENIC
SBS	Chr9	10181629	C-T	Hetero	INTRON
SBS	Chr10	7419023	G-A	Hetero	INTERGENIC
SBS	Chr10	16157814	C-A	Hetero	INTRON
SBS	Chr10	22759412	G-T	Hetero	INTERGENIC
SBS	Chr11	12008222	C-T	Homo	UTR_5_PRIME

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	167001	198000	30999	9
Deletion	Chr2	596001	611000	14999	OsKitaake02g009000
Deletion	Chr6	758001	780000	21999	OsKitaake06g007600
Deletion	Chr8	837001	846000	8999
Deletion	Chr8	915001	941000	25999	OsKitaake08g012200
Deletion	Chr9	1146001	1159000	12999	OsKitaake09g006900
Deletion	Chr9	1602001	1617000	14999	OsKitaake09g009200
Deletion	Chr3	1675001	1690000	14999	OsKitaake03g023750
Deletion	Chr7	1786001	1800000	13999
Deletion	Chr5	2555001	2568000	12999	OsKitaake05g029000
Deletion	Chr3	2680001	2695000	14999	OsKitaake03g038200
Deletion	Chr7	2835537	2835539	2
Deletion	Chr7	3169001	3189000	19999	2
Deletion	Chr8	3211001	3230000	18999	OsKitaake08g036200
Deletion	Chr5	3370001	3421000	50999	7
Deletion	Chr9	3504001	3515000	10999	OsKitaake09g018000
Deletion	Chr6	3607954	3607958	4
Deletion	Chr8	3673001	3684000	10999
Deletion	Chr6	4683431	4683434	3
Deletion	Chr7	4794001	4810000	15999	2
Deletion	Chr4	4884001	4896000	11999	OsKitaake04g022200
Deletion	Chr8	5298001	5309000	10999	2
Deletion	Chr8	5415001	5446000	30999	4
Deletion	Chr9	5735001	5743000	7999	OsKitaake09g032700
Deletion	Chr2	5805001	5823000	17999	OsKitaake02g080100
Deletion	Chr3	6082001	6109000	26999	2
Deletion	Chr4	6733001	6745000	11999
Deletion	Chr9	7835001	7849000	13999	3
Deletion	Chr8	7857001	7874000	16999
Deletion	Chr9	8758001	8780000	21999	OsKitaake09g051400
Deletion	Chr2	9328001	9339000	10999	OsKitaake02g116000
Deletion	Chr2	10582001	10590000	7999	OsKitaake02g125100
Deletion	Chr7	10730001	10747000	16999	2
Deletion	Chr1	11300577	11300578	1
Deletion	Chr12	11331001	11353000	21999	OsKitaake12g102301
Deletion	Chr11	11379001	11390000	10999
Deletion	Chr2	11539001	11550000	10999
Deletion	Chr7	12141716	12141718	2
Deletion	Chr2	12162001	12173000	10999	2
Deletion	Chr5	12519001	12556000	36999
Deletion	Chr9	12612001	12620000	7999
Deletion	Chr8	12886276	12886281	5
Deletion	Chr12	13002001	13017000	14999
Deletion	Chr7	13063001	13074000	10999
Deletion	Chr9	13360001	13380000	19999	2
Deletion	Chr11	13411001	13427000	15999	OsKitaake11g115300
Deletion	Chr3	15541001	15584000	42999
Deletion	Chr2	16067001	16118000	50999	OsKitaake02g166300
Deletion	Chr2	16305001	16320000	14999	OsKitaake02g167700
Deletion	Chr11	16360001	16369000	8999	2
Deletion	Chr8	16561001	16581000	19999	4
Deletion	Chr1	16665001	16688000	22999	OsKitaake01g177400
Deletion	Chr4	17092001	17102000	9999	OsKitaake04g083400
Deletion	Chr12	17997301	17997302	1	OsKitaake12g132300
Deletion	Chr3	18177590	18177591	1	OsKitaake03g221700
Deletion	Chr6	18355001	18380000	24999	OsKitaake06g168100
Deletion	Chr9	18513717	18513726	9
Deletion	Chr10	18688001	18711000	22999	3
Deletion	Chr3	19997001	20020000	22999	OsKitaake03g230101
Deletion	Chr3	20254001	20287000	32999
Deletion	Chr3	20878001	20890000	11999	2
Deletion	Chr4	21039001	21066000	26999	5
Deletion	Chr2	21457197	21457198	1
Deletion	Chr12	21620001	21632000	11999
Deletion	Chr10	23133001	23163000	29999	OsKitaake10g195250
Deletion	Chr6	24011001	24053000	41999	2
Deletion	Chr12	24374001	24399000	24999	4
Deletion	Chr11	24523001	24547000	23999	2
Deletion	Chr12	25098001	25109000	10999	2
Deletion	Chr2	25209403	25209405	2
Deletion	Chr7	26850001	26860000	9999	OsKitaake07g250200
Deletion	Chr7	27673001	27685000	11999	2
Deletion	Chr6	27777001	27790000	12999
Deletion	Chr5	28594465	28594468	3
Deletion	Chr3	28649001	28669000	19999
Deletion	Chr3	31019001	31031000	11999	OsKitaake03g325700
Deletion	Chr2	31611001	31629000	17999	OsKitaake02g321880
Deletion	Chr2	32160001	32188000	27999	2
Deletion	Chr4	32808001	32837000	28999	4
Deletion	Chr1	33383365	33383369	4
Deletion	Chr1	34674124	34674128	4
Deletion	Chr1	41459001	41483000	23999	OsKitaake01g452800

Variant Type	Chromosome	Position 1	Chromosome	Position 2	Number of Genes
Translocation	Chr7	19159746	Chr1	3261098	2
Translocation	Chr7	19159857	Chr1	3261081	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

Chromosome

Position 2

Number of Genes