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Mutant Information

Mutant Name	FN2220-S [Download]
Generation	M2
Genus Species	Oryza Sativa
Cultivar	Kitaake
Alignment File (BAM File)	Download FN2220-S Alignment File
Seed Availability	Yes [Order Seeds]
Phenotype	TO:0000430 (Germination Rate) = Normal (Between 75% and 125%) For more information, please see this phenotype file

Variant Information

Single base substitutions: 44

Variant Type

Chromosome

Position

Change

Genotype

Effect

Gene Affected

SBS Chr1 21536619 C-T Hetero INTERGENIC
SBS Chr1 22754295 C-G Hetero INTERGENIC
SBS Chr1 24640142 A-G Hetero INTERGENIC
SBS Chr1 26038316 A-T Hetero INTERGENIC
SBS Chr1 40535928 C-T Hetero INTRON
SBS Chr2 6080189 T-A Hetero INTERGENIC
SBS Chr2 6278292 C-G Homo START_GAINED
SBS Chr2 28414948 G-A Hetero INTERGENIC
SBS Chr3 474274 A-G Hetero INTERGENIC
SBS Chr3 1779204 G-A Hetero NON_SYNONYMOUS_CODING OsKitaake03g025500
SBS Chr3 14720237 A-G Hetero NON_SYNONYMOUS_CODING OsKitaake03g191400
SBS Chr4 11410774 G-A Hetero INTERGENIC
SBS Chr4 21945381 A-G Hetero INTERGENIC
SBS Chr5 4485888 C-T Hetero INTERGENIC
SBS Chr5 11959414 G-T Homo INTERGENIC
SBS Chr5 24476759 G-A Hetero INTERGENIC
SBS Chr5 24792611 T-A Hetero INTRON
SBS Chr5 25835419 G-T Hetero UTR_5_PRIME
SBS Chr5 28197952 T-C Homo UTR_3_PRIME
SBS Chr5 29328532 T-G Hetero INTERGENIC
SBS Chr6 313917 G-A Hetero INTERGENIC
SBS Chr6 18071224 C-T Hetero INTERGENIC
SBS Chr6 20134091 C-A Hetero INTERGENIC
SBS Chr6 21069518 C-G Hetero INTERGENIC
SBS Chr6 24771023 C-A Hetero SYNONYMOUS_CODING
SBS Chr6 29246320 G-A Homo SYNONYMOUS_CODING
SBS Chr7 12589229 G-A Hetero INTERGENIC
SBS Chr7 14694494 A-G Homo INTRON
SBS Chr7 18718843 A-G Hetero INTERGENIC
SBS Chr8 10376076 C-T Hetero INTERGENIC
SBS Chr8 16256755 G-C Hetero INTRON
SBS Chr9 5773527 A-G Hetero INTRON
SBS Chr9 10981547 A-G Hetero INTRON
SBS Chr9 12881830 T-G Homo INTERGENIC
SBS Chr9 14965204 C-T Homo INTERGENIC
SBS Chr9 17658575 G-T Homo NON_SYNONYMOUS_CODING OsKitaake09g133500
SBS Chr10 38946 G-T Hetero INTERGENIC
SBS Chr10 5507556 T-A Hetero INTERGENIC
SBS Chr10 15423518 T-A Hetero INTERGENIC
SBS Chr11 10128665 T-C Homo INTRON
SBS Chr11 10606907 G-A Homo INTERGENIC
SBS Chr12 2267064 C-T Homo INTERGENIC
SBS Chr12 11899654 C-T Hetero INTERGENIC
SBS Chr12 22071781 C-G Homo INTERGENIC

Deletions: 22

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Deletion Chr3 495161 495162 1
Deletion Chr10 508515 508526 11
Deletion Chr3 3225882 3225886 4
Deletion Chr5 5931919 5931920 1
Deletion Chr12 6340234 6340237 3
Deletion Chr6 7285043 7285050 7
Deletion Chr7 7958270 7958272 2
Deletion Chr5 9326184 9326190 6
Deletion Chr5 13846644 13846653 9
Deletion Chr3 16417066 16417075 9
Deletion Chr11 18065926 18065929 3
Deletion Chr11 19332001 19354000 21999 2
Deletion Chr9 19584427 19584430 3
Deletion Chr8 19592777 19592784 7 OsKitaake08g143700
Deletion Chr7 21522068 21522071 3 OsKitaake07g179500
Deletion Chr7 26541548 26541554 6
Deletion Chr5 26560035 26560036 1
Deletion Chr8 27321247 27321249 2
Deletion Chr1 28564218 28564219 1
Deletion Chr11 29635842 29635845 3
Deletion Chr3 33978409 33978419 10
Deletion Chr1 40334710 40334714 4 OsKitaake01g437800

Insertions: 3

Variant Type

Chromosome

Start

End

Size(bp)

Number of Genes

Insertion Chr7 12904948 12904951 2
Insertion Chr10 20709763 20709766 2
Insertion Chr8 13485807 13485809 1

Inversions: 4

Variant Type

Chromosome

Position 1

Position 2

Number of Genes

Inversion Chr3 1679982 2381100 OsKitaake03g023750
Inversion Chr3 1679983 2381095 OsKitaake03g023750
Inversion Chr11 19333088 19873733
Inversion Chr11 19352563 19873734

Translocations: 3

Variant Type

Chromosome

Position 1

Chromosome

Position 2

Number of Genes

Translocation Chr10 13210898 Chr3 19251288
Translocation Chr10 23473520 Chr7 16877084 OsKitaake10g200400
Translocation Chr10 23473527 Chr7 16876895 OsKitaake10g200400

Variant Type	Chromosome	Position	Change	Genotype	Effect	Gene Affected
SBS	Chr1	21536619	C-T	Hetero	INTERGENIC
SBS	Chr1	22754295	C-G	Hetero	INTERGENIC
SBS	Chr1	24640142	A-G	Hetero	INTERGENIC
SBS	Chr1	26038316	A-T	Hetero	INTERGENIC
SBS	Chr1	40535928	C-T	Hetero	INTRON
SBS	Chr2	6080189	T-A	Hetero	INTERGENIC
SBS	Chr2	6278292	C-G	Homo	START_GAINED
SBS	Chr2	28414948	G-A	Hetero	INTERGENIC
SBS	Chr3	474274	A-G	Hetero	INTERGENIC
SBS	Chr3	1779204	G-A	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g025500
SBS	Chr3	14720237	A-G	Hetero	NON_SYNONYMOUS_CODING	OsKitaake03g191400
SBS	Chr4	11410774	G-A	Hetero	INTERGENIC
SBS	Chr4	21945381	A-G	Hetero	INTERGENIC
SBS	Chr5	4485888	C-T	Hetero	INTERGENIC
SBS	Chr5	11959414	G-T	Homo	INTERGENIC
SBS	Chr5	24476759	G-A	Hetero	INTERGENIC
SBS	Chr5	24792611	T-A	Hetero	INTRON
SBS	Chr5	25835419	G-T	Hetero	UTR_5_PRIME
SBS	Chr5	28197952	T-C	Homo	UTR_3_PRIME
SBS	Chr5	29328532	T-G	Hetero	INTERGENIC
SBS	Chr6	313917	G-A	Hetero	INTERGENIC
SBS	Chr6	18071224	C-T	Hetero	INTERGENIC
SBS	Chr6	20134091	C-A	Hetero	INTERGENIC
SBS	Chr6	21069518	C-G	Hetero	INTERGENIC
SBS	Chr6	24771023	C-A	Hetero	SYNONYMOUS_CODING
SBS	Chr6	29246320	G-A	Homo	SYNONYMOUS_CODING
SBS	Chr7	12589229	G-A	Hetero	INTERGENIC
SBS	Chr7	14694494	A-G	Homo	INTRON
SBS	Chr7	18718843	A-G	Hetero	INTERGENIC
SBS	Chr8	10376076	C-T	Hetero	INTERGENIC
SBS	Chr8	16256755	G-C	Hetero	INTRON
SBS	Chr9	5773527	A-G	Hetero	INTRON
SBS	Chr9	10981547	A-G	Hetero	INTRON
SBS	Chr9	12881830	T-G	Homo	INTERGENIC
SBS	Chr9	14965204	C-T	Homo	INTERGENIC
SBS	Chr9	17658575	G-T	Homo	NON_SYNONYMOUS_CODING	OsKitaake09g133500
SBS	Chr10	38946	G-T	Hetero	INTERGENIC
SBS	Chr10	5507556	T-A	Hetero	INTERGENIC
SBS	Chr10	15423518	T-A	Hetero	INTERGENIC
SBS	Chr11	10128665	T-C	Homo	INTRON
SBS	Chr11	10606907	G-A	Homo	INTERGENIC
SBS	Chr12	2267064	C-T	Homo	INTERGENIC
SBS	Chr12	11899654	C-T	Hetero	INTERGENIC
SBS	Chr12	22071781	C-G	Homo	INTERGENIC

Variant Type	Chromosome	Start	End	Size(bp)	Number of Genes
Deletion	Chr3	495161	495162	1
Deletion	Chr10	508515	508526	11
Deletion	Chr3	3225882	3225886	4
Deletion	Chr5	5931919	5931920	1
Deletion	Chr12	6340234	6340237	3
Deletion	Chr6	7285043	7285050	7
Deletion	Chr7	7958270	7958272	2
Deletion	Chr5	9326184	9326190	6
Deletion	Chr5	13846644	13846653	9
Deletion	Chr3	16417066	16417075	9
Deletion	Chr11	18065926	18065929	3
Deletion	Chr11	19332001	19354000	21999	2
Deletion	Chr9	19584427	19584430	3
Deletion	Chr8	19592777	19592784	7	OsKitaake08g143700
Deletion	Chr7	21522068	21522071	3	OsKitaake07g179500
Deletion	Chr7	26541548	26541554	6
Deletion	Chr5	26560035	26560036	1
Deletion	Chr8	27321247	27321249	2
Deletion	Chr1	28564218	28564219	1
Deletion	Chr11	29635842	29635845	3
Deletion	Chr3	33978409	33978419	10
Deletion	Chr1	40334710	40334714	4	OsKitaake01g437800

Variant Type	Chromosome	Position 1	Position 2	Number of Genes
Inversion	Chr3	1679982	2381100	OsKitaake03g023750
Inversion	Chr3	1679983	2381095	OsKitaake03g023750
Inversion	Chr11	19333088	19873733
Inversion	Chr11	19352563	19873734

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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