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Mutant Information

Mutant Name	FN1237-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1237-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) = Normal (Between 75% and 125%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 42

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 15469291 G-A Hetero START_LOST OsKitaake01g169100
SBS Chr1 22283782 C-G Hetero INTERGENIC
SBS Chr1 29805396 T-C Homo INTERGENIC
SBS Chr2 1233345 T-A Hetero INTRON
SBS Chr2 1233348 T-A Hetero INTRON
SBS Chr2 1233350 T-A Hetero INTRON
SBS Chr2 12393963 T-C Hetero INTERGENIC
SBS Chr2 20409201 C-A Homo INTERGENIC
SBS Chr2 28371109 T-C Hetero INTERGENIC
SBS Chr2 29344119 A-T Hetero INTRON
SBS Chr2 31785019 A-G Hetero INTERGENIC
SBS Chr2 36697645 C-T Hetero INTERGENIC
SBS Chr3 17947189 C-A Hetero INTERGENIC
SBS Chr4 16238410 G-A Homo INTERGENIC
SBS Chr4 22897262 G-A Hetero INTERGENIC
SBS Chr4 28059007 T-A Hetero INTERGENIC
SBS Chr4 29205473 A-T Homo INTRON
SBS Chr5 11790339 A-G Homo INTERGENIC
SBS Chr6 14006407 A-C Homo UTR_3_PRIME
SBS Chr6 26543798 C-T Homo INTERGENIC
SBS Chr6 27164458 G-C Homo UTR_5_PRIME
SBS Chr7 5575906 A-G Hetero INTERGENIC
SBS Chr7 5575909 A-T Hetero INTERGENIC
SBS Chr7 9820483 C-T Homo INTERGENIC
SBS Chr7 26133196 C-A Hetero INTRON
SBS Chr8 6637325 C-G Homo INTERGENIC
SBS Chr8 10121358 T-A Homo INTERGENIC
SBS Chr8 17992700 C-T Homo INTERGENIC
SBS Chr8 23160425 A-T Hetero INTERGENIC
SBS Chr8 27013498 C-T Hetero SYNONYMOUS_CODING
SBS Chr9 1442255 C-T Hetero INTERGENIC
SBS Chr9 16773955 T-C Homo INTERGENIC
SBS Chr10 492089 G-T Hetero INTERGENIC
SBS Chr10 1300345 A-G Homo INTERGENIC
SBS Chr10 2182936 A-G Homo INTERGENIC
SBS Chr10 6687435 C-T Homo INTRON
SBS Chr10 22733622 C-T Hetero INTERGENIC
SBS Chr11 19958076 A-T Homo INTRON
SBS Chr11 25164779 C-T Hetero INTRON
SBS Chr12 6584956 C-T Hetero INTERGENIC
SBS Chr12 16250114 A-T Hetero INTERGENIC
SBS Chr12 19489063 C-T Hetero INTERGENIC

Deletions: 20

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr5 1373001 1382000 8999 OsKitaake05g017100
Deletion Chr7 6947054 6947059 5
Deletion Chr10 7483719 7483725 6
Deletion Chr11 8219001 8879000 659999 46
Deletion Chr9 12635637 12635639 2
Deletion Chr7 12917827 12917912 85
Deletion Chr11 13712259 13712265 6 OsKitaake11g116200
Deletion Chr11 14768255 14768257 2
Deletion Chr11 15437428 15437439 11
Deletion Chr8 17794309 17794310 1
Deletion Chr11 18032005 18032011 6
Deletion Chr9 20245529 20245531 2
Deletion Chr6 21599381 21599385 4
Deletion Chr2 22353897 22353899 2
Deletion Chr6 22923001 22933000 9999 OsKitaake06g202600
Deletion Chr3 28689680 28689682 2
Deletion Chr6 29122063 29122065 2 OsKitaake06g268700
Deletion Chr7 29265418 29265530 112
Deletion Chr3 31502333 31502335 2
Deletion Chr4 36812383 36812388 5

Insertions: 11

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr2 14475430 14475433 2
Insertion Chr2 21806127 21806131 3
Insertion Chr3 11619249 11619252 2
Insertion Chr3 37785809 37785812 2
Insertion Chr4 19155987 19155994 6
Insertion Chr5 5606800 5606803 2
Insertion Chr12 17566882 17566887 4
Insertion Chr3 16743903 16743905 1
Insertion Chr3 20043406 20043419 12
Insertion Chr6 87853 87856 2
Insertion Chr9 21690517 21690519 1 OsKitaake09g190800

Inversions: 10

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr10 223239 496917
Inversion Chr10 223276 496921
Inversion Chr11 7338625 8214383
Inversion Chr7 17879853 17889848
Inversion Chr1 20833399 21046656 2
Inversion Chr1 20833418 21046658 2
Inversion Chr9 21207741 21801412 2
Inversion Chr9 21207745 21801422 2
Inversion Chr10 22206444 22475214 OsKitaake10g181100
Inversion Chr10 22206445 22475202 OsKitaake10g181100

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	15469291	G-A	Hetero	START_LOST	OsKitaake01g169100
SBS	Chr1	22283782	C-G	Hetero	INTERGENIC
SBS	Chr1	29805396	T-C	Homo	INTERGENIC
SBS	Chr2	1233345	T-A	Hetero	INTRON
SBS	Chr2	1233348	T-A	Hetero	INTRON
SBS	Chr2	1233350	T-A	Hetero	INTRON
SBS	Chr2	12393963	T-C	Hetero	INTERGENIC
SBS	Chr2	20409201	C-A	Homo	INTERGENIC
SBS	Chr2	28371109	T-C	Hetero	INTERGENIC
SBS	Chr2	29344119	A-T	Hetero	INTRON
SBS	Chr2	31785019	A-G	Hetero	INTERGENIC
SBS	Chr2	36697645	C-T	Hetero	INTERGENIC
SBS	Chr3	17947189	C-A	Hetero	INTERGENIC
SBS	Chr4	16238410	G-A	Homo	INTERGENIC
SBS	Chr4	22897262	G-A	Hetero	INTERGENIC
SBS	Chr4	28059007	T-A	Hetero	INTERGENIC
SBS	Chr4	29205473	A-T	Homo	INTRON
SBS	Chr5	11790339	A-G	Homo	INTERGENIC
SBS	Chr6	14006407	A-C	Homo	UTR_3_PRIME
SBS	Chr6	26543798	C-T	Homo	INTERGENIC
SBS	Chr6	27164458	G-C	Homo	UTR_5_PRIME
SBS	Chr7	5575906	A-G	Hetero	INTERGENIC
SBS	Chr7	5575909	A-T	Hetero	INTERGENIC
SBS	Chr7	9820483	C-T	Homo	INTERGENIC
SBS	Chr7	26133196	C-A	Hetero	INTRON
SBS	Chr8	6637325	C-G	Homo	INTERGENIC
SBS	Chr8	10121358	T-A	Homo	INTERGENIC
SBS	Chr8	17992700	C-T	Homo	INTERGENIC
SBS	Chr8	23160425	A-T	Hetero	INTERGENIC
SBS	Chr8	27013498	C-T	Hetero	SYNONYMOUS_CODING
SBS	Chr9	1442255	C-T	Hetero	INTERGENIC
SBS	Chr9	16773955	T-C	Homo	INTERGENIC
SBS	Chr10	492089	G-T	Hetero	INTERGENIC
SBS	Chr10	1300345	A-G	Homo	INTERGENIC
SBS	Chr10	2182936	A-G	Homo	INTERGENIC
SBS	Chr10	6687435	C-T	Homo	INTRON
SBS	Chr10	22733622	C-T	Hetero	INTERGENIC
SBS	Chr11	19958076	A-T	Homo	INTRON
SBS	Chr11	25164779	C-T	Hetero	INTRON
SBS	Chr12	6584956	C-T	Hetero	INTERGENIC
SBS	Chr12	16250114	A-T	Hetero	INTERGENIC
SBS	Chr12	19489063	C-T	Hetero	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr5	1373001	1382000	8999	OsKitaake05g017100
Deletion	Chr7	6947054	6947059	5
Deletion	Chr10	7483719	7483725	6
Deletion	Chr11	8219001	8879000	659999	46
Deletion	Chr9	12635637	12635639	2
Deletion	Chr7	12917827	12917912	85
Deletion	Chr11	13712259	13712265	6	OsKitaake11g116200
Deletion	Chr11	14768255	14768257	2
Deletion	Chr11	15437428	15437439	11
Deletion	Chr8	17794309	17794310	1
Deletion	Chr11	18032005	18032011	6
Deletion	Chr9	20245529	20245531	2
Deletion	Chr6	21599381	21599385	4
Deletion	Chr2	22353897	22353899	2
Deletion	Chr6	22923001	22933000	9999	OsKitaake06g202600
Deletion	Chr3	28689680	28689682	2
Deletion	Chr6	29122063	29122065	2	OsKitaake06g268700
Deletion	Chr7	29265418	29265530	112
Deletion	Chr3	31502333	31502335	2
Deletion	Chr4	36812383	36812388	5

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr10	223239	496917
Inversion	Chr10	223276	496921
Inversion	Chr11	7338625	8214383
Inversion	Chr7	17879853	17889848
Inversion	Chr1	20833399	21046656	2
Inversion	Chr1	20833418	21046658	2
Inversion	Chr9	21207741	21801412	2
Inversion	Chr9	21207745	21801422	2
Inversion	Chr10	22206444	22475214	OsKitaake10g181100
Inversion	Chr10	22206445	22475202	OsKitaake10g181100

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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