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Mutant Information

Mutant Name	FN1285-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN1285-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) = Low (Between 25% and 74%) TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 34

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 3949987 C-T Homo NON_SYNONYMOUS_CODING OsKitaake01g053300
SBS Chr1 4899280 A-T Hetero INTERGENIC
SBS Chr1 12769296 T-A Homo INTRON
SBS Chr1 36819577 C-T Homo INTERGENIC
SBS Chr3 17256645 G-A Hetero INTERGENIC
SBS Chr3 37695132 C-T Hetero INTERGENIC
SBS Chr4 13876897 A-G Homo INTERGENIC
SBS Chr4 28415381 A-G Hetero INTERGENIC
SBS Chr5 6953934 G-A Hetero INTERGENIC
SBS Chr5 12374913 T-C Hetero INTERGENIC
SBS Chr5 14509585 C-A Hetero INTERGENIC
SBS Chr5 20330685 C-T Hetero INTERGENIC
SBS Chr5 20330686 C-T Hetero INTERGENIC
SBS Chr5 20418278 C-T Hetero INTERGENIC
SBS Chr6 10077852 T-A Hetero SYNONYMOUS_CODING
SBS Chr6 10314010 G-A Hetero INTERGENIC
SBS Chr6 15136596 C-T Hetero INTERGENIC
SBS Chr7 7053470 G-T Hetero INTERGENIC
SBS Chr7 9121322 A-G Hetero INTERGENIC
SBS Chr7 15149925 G-T Hetero NON_SYNONYMOUS_CODING OsKitaake07g126900
SBS Chr7 16590960 T-C Hetero INTERGENIC
SBS Chr8 11830328 C-A Homo INTRON
SBS Chr8 11885870 G-T Homo INTERGENIC
SBS Chr8 13248223 T-G Homo INTERGENIC
SBS Chr8 25943459 C-T Hetero INTERGENIC
SBS Chr9 3132105 G-A Homo INTERGENIC
SBS Chr10 19161603 A-G Homo INTERGENIC
SBS Chr11 5805402 T-C Homo INTERGENIC
SBS Chr11 15269312 G-A Hetero INTERGENIC
SBS Chr11 19435655 C-T Homo INTERGENIC
SBS Chr11 26113448 G-A Hetero INTERGENIC
SBS Chr12 8247665 G-A Hetero INTERGENIC
SBS Chr12 16400209 C-A Homo NON_SYNONYMOUS_CODING OsKitaake12g124500
SBS Chr12 17582128 C-G Homo INTERGENIC

Deletions: 15

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr1 2635699 2635707 8
Deletion Chr6 2803976 2803977 1
Deletion Chr11 3416524 3416528 4
Deletion Chr8 3575357 3575358 1
Deletion Chr4 6036420 6036421 1
Deletion Chr4 7833849 7833850 1
Deletion Chr3 7884921 7884926 5
Deletion Chr4 10450844 10450854 10
Deletion Chr3 12511618 12511623 5
Deletion Chr4 12992929 12992935 6
Deletion Chr6 15742351 15742352 1
Deletion Chr6 21723001 21770000 46999 5
Deletion Chr6 22003001 22041000 37999 5
Deletion Chr11 22083836 22083841 5
Deletion Chr3 32758520 32758526 6

Insertions: 8

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr6 30624404 30624407 2
Insertion Chr7 15700486 15700489 2
Insertion Chr12 3464414 3464422 7
Insertion Chr4 9487228 9487230 1
Insertion Chr6 10856 10859 2
Insertion Chr6 15745022 15745025 2
Insertion Chr9 2754476 2754478 1
Insertion Chr12 11689040 11689042 1

Inversions: 49

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr7 535461 535588 OsKitaake07g006000
Inversion Chr5 874868 875155 OsKitaake05g010600
Inversion Chr1 1789061 1789233
Inversion Chr6 1961657 1961807
Inversion Chr3 3775423 3775796 OsKitaake03g053000
Inversion Chr5 5037363 5037629
Inversion Chr11 6896358 6896655
Inversion Chr5 7182552 7182824 OsKitaake05g072000
Inversion Chr7 7372714 7372821
Inversion Chr11 7972984 7973141 OsKitaake11g088000
Inversion Chr6 8109575 8109765 OsKitaake06g102500
Inversion Chr5 9306000 9306326
Inversion Chr10 9671244 9671421
Inversion Chr2 11735158 11735339
Inversion Chr10 13131316 13149855
Inversion Chr9 13301592 13301821
Inversion Chr1 13827794 13827975
Inversion Chr2 14621348 14621466
Inversion Chr11 14718626 14718847
Inversion Chr6 16389140 16650290 OsKitaake06g156600
Inversion Chr6 16389155 16650496 OsKitaake06g156600
Inversion Chr9 16985823 16985954
Inversion Chr8 18848353 18848561 OsKitaake08g139700
Inversion Chr9 20007205 20007556 OsKitaake09g167100
Inversion Chr7 20385655 20385882
Inversion Chr9 20883054 20883444 OsKitaake09g178400
Inversion Chr8 21008807 21008919 OsKitaake08g157900
Inversion Chr6 21247593 21939655
Inversion Chr3 21568853 21776510 2
Inversion Chr6 21672294 22049990 2
Inversion Chr6 21719382 22045123
Inversion Chr3 21805541 22312829
Inversion Chr6 21939580 22002808 OsKitaake06g193700
Inversion Chr9 22127293 22127394
Inversion Chr1 22262846 22263193 OsKitaake01g213000
Inversion Chr5 22861009 22861133 OsKitaake05g189200
Inversion Chr4 23946099 23946211 OsKitaake04g151300
Inversion Chr5 25524326 25524627
Inversion Chr2 26362475 26362632 OsKitaake02g262600
Inversion Chr11 26737823 26738060 OsKitaake11g217800
Inversion Chr12 26896255 26896389 OsKitaake12g224800
Inversion Chr4 27512979 27513291 OsKitaake04g201400
Inversion Chr1 27897438 27897636
Inversion Chr5 28146504 28146680
Inversion Chr5 28180434 28180709 OsKitaake05g261100
Inversion Chr11 29595700 29595944
Inversion Chr3 30319561 30319943
Inversion Chr1 31395167 31395344 OsKitaake01g314800
Inversion Chr1 31760529 31760662

Translocations: 1

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr6 21719379 Chr3 21805521

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	3949987	C-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake01g053300
SBS	Chr1	4899280	A-T	Hetero	INTERGENIC
SBS	Chr1	12769296	T-A	Homo	INTRON
SBS	Chr1	36819577	C-T	Homo	INTERGENIC
SBS	Chr3	17256645	G-A	Hetero	INTERGENIC
SBS	Chr3	37695132	C-T	Hetero	INTERGENIC
SBS	Chr4	13876897	A-G	Homo	INTERGENIC
SBS	Chr4	28415381	A-G	Hetero	INTERGENIC
SBS	Chr5	6953934	G-A	Hetero	INTERGENIC
SBS	Chr5	12374913	T-C	Hetero	INTERGENIC
SBS	Chr5	14509585	C-A	Hetero	INTERGENIC
SBS	Chr5	20330685	C-T	Hetero	INTERGENIC
SBS	Chr5	20330686	C-T	Hetero	INTERGENIC
SBS	Chr5	20418278	C-T	Hetero	INTERGENIC
SBS	Chr6	10077852	T-A	Hetero	SYNONYMOUS_CODING
SBS	Chr6	10314010	G-A	Hetero	INTERGENIC
SBS	Chr6	15136596	C-T	Hetero	INTERGENIC
SBS	Chr7	7053470	G-T	Hetero	INTERGENIC
SBS	Chr7	9121322	A-G	Hetero	INTERGENIC
SBS	Chr7	15149925	G-T	Hetero	NON_SYNONYMOUS_CODING	OsKitaake07g126900
SBS	Chr7	16590960	T-C	Hetero	INTERGENIC
SBS	Chr8	11830328	C-A	Homo	INTRON
SBS	Chr8	11885870	G-T	Homo	INTERGENIC
SBS	Chr8	13248223	T-G	Homo	INTERGENIC
SBS	Chr8	25943459	C-T	Hetero	INTERGENIC
SBS	Chr9	3132105	G-A	Homo	INTERGENIC
SBS	Chr10	19161603	A-G	Homo	INTERGENIC
SBS	Chr11	5805402	T-C	Homo	INTERGENIC
SBS	Chr11	15269312	G-A	Hetero	INTERGENIC
SBS	Chr11	19435655	C-T	Homo	INTERGENIC
SBS	Chr11	26113448	G-A	Hetero	INTERGENIC
SBS	Chr12	8247665	G-A	Hetero	INTERGENIC
SBS	Chr12	16400209	C-A	Homo	NON_SYNONYMOUS_CODING	OsKitaake12g124500
SBS	Chr12	17582128	C-G	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr1	2635699	2635707	8
Deletion	Chr6	2803976	2803977	1
Deletion	Chr11	3416524	3416528	4
Deletion	Chr8	3575357	3575358	1
Deletion	Chr4	6036420	6036421	1
Deletion	Chr4	7833849	7833850	1
Deletion	Chr3	7884921	7884926	5
Deletion	Chr4	10450844	10450854	10
Deletion	Chr3	12511618	12511623	5
Deletion	Chr4	12992929	12992935	6
Deletion	Chr6	15742351	15742352	1
Deletion	Chr6	21723001	21770000	46999	5
Deletion	Chr6	22003001	22041000	37999	5
Deletion	Chr11	22083836	22083841	5
Deletion	Chr3	32758520	32758526	6

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr7	535461	535588	OsKitaake07g006000
Inversion	Chr5	874868	875155	OsKitaake05g010600
Inversion	Chr1	1789061	1789233
Inversion	Chr6	1961657	1961807
Inversion	Chr3	3775423	3775796	OsKitaake03g053000
Inversion	Chr5	5037363	5037629
Inversion	Chr11	6896358	6896655
Inversion	Chr5	7182552	7182824	OsKitaake05g072000
Inversion	Chr7	7372714	7372821
Inversion	Chr11	7972984	7973141	OsKitaake11g088000
Inversion	Chr6	8109575	8109765	OsKitaake06g102500
Inversion	Chr5	9306000	9306326
Inversion	Chr10	9671244	9671421
Inversion	Chr2	11735158	11735339
Inversion	Chr10	13131316	13149855
Inversion	Chr9	13301592	13301821
Inversion	Chr1	13827794	13827975
Inversion	Chr2	14621348	14621466
Inversion	Chr11	14718626	14718847
Inversion	Chr6	16389140	16650290	OsKitaake06g156600
Inversion	Chr6	16389155	16650496	OsKitaake06g156600
Inversion	Chr9	16985823	16985954
Inversion	Chr8	18848353	18848561	OsKitaake08g139700
Inversion	Chr9	20007205	20007556	OsKitaake09g167100
Inversion	Chr7	20385655	20385882
Inversion	Chr9	20883054	20883444	OsKitaake09g178400
Inversion	Chr8	21008807	21008919	OsKitaake08g157900
Inversion	Chr6	21247593	21939655
Inversion	Chr3	21568853	21776510	2
Inversion	Chr6	21672294	22049990	2
Inversion	Chr6	21719382	22045123
Inversion	Chr3	21805541	22312829
Inversion	Chr6	21939580	22002808	OsKitaake06g193700
Inversion	Chr9	22127293	22127394
Inversion	Chr1	22262846	22263193	OsKitaake01g213000
Inversion	Chr5	22861009	22861133	OsKitaake05g189200
Inversion	Chr4	23946099	23946211	OsKitaake04g151300
Inversion	Chr5	25524326	25524627
Inversion	Chr2	26362475	26362632	OsKitaake02g262600
Inversion	Chr11	26737823	26738060	OsKitaake11g217800
Inversion	Chr12	26896255	26896389	OsKitaake12g224800
Inversion	Chr4	27512979	27513291	OsKitaake04g201400
Inversion	Chr1	27897438	27897636
Inversion	Chr5	28146504	28146680
Inversion	Chr5	28180434	28180709	OsKitaake05g261100
Inversion	Chr11	29595700	29595944
Inversion	Chr3	30319561	30319943
Inversion	Chr1	31395167	31395344	OsKitaake01g314800
Inversion	Chr1	31760529	31760662

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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