Browse Element(s) Details

Os.35482.1.S1_at

Description

gb:AK063482.1
DB_XREF= gi:32973500
TID=Os.35482.1
CNT=7
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.35482 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013102H14, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-116-B11, full insert sequence.
FL= gb:AK063482.1
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os05g04330	11/11	DNA methyltransferase DMT106, putative, expressed

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os05g04260	OsAffx.27864.4.S1_x_at	11/11	5	+	1917381..1920071	AT hook motif-containing protein, putative
LOC_Os05g04270	NA	NA	5	+	1921542..1921805	hypothetical protein
LOC_Os05g04280	Os.10731.1.A1_a_at	11/11	5	+	1923491..1924217	retrotransposon protein, putative, unclassified
LOC_Os05g04280	Os.38764.1.S1_x_at	8/11	5	+	1923491..1924217	retrotransposon protein, putative, unclassified
LOC_Os05g04280	Os.47130.4.A1_x_at	3/11	5	+	1923491..1924217	retrotransposon protein, putative, unclassified
LOC_Os05g04290	Os.28943.1.S1_x_at	4/11	5	+	1925157..1928383	retrotransposon protein, putative, unclassified
LOC_Os05g04300	NA	NA	5	+	1929004..1932476	retrotransposon protein, putative, unclassified
LOC_Os05g04310	NA	NA	5	+	1935381..1935698	hypothetical protein
LOC_Os05g04320	NA	NA	5	+	1936783..1938945	retrotransposon protein, putative, unclassified
LOC_Os05g04330	Os.35482.1.S1_at	11/11	5	+	1943620..1952894	DNA methyltransferase DMT106, putative, expressed
LOC_Os05g04330	Os.35482.1.S1_s_at	11/11	5	+	1943620..1952894	DNA methyltransferase DMT106, putative, expressed
LOC_Os05g04330	Os.35482.2.S1_at	11/11	5	+	1943620..1952894	DNA methyltransferase DMT106, putative, expressed
LOC_Os05g04340	Os.5678.2.S1_at	11/11	5	+	1952052..1955861	Glycogen synthase kinase-3 homolog MsK-3, putative, expressed
LOC_Os05g04340	Os.5678.1.S1_x_at	11/11	5	+	1952052..1955861	Glycogen synthase kinase-3 homolog MsK-3, putative, expressed
LOC_Os05g04350	Os.46012.2.S1_x_at	7/11	5	+	1961409..1966184	retrotransposon protein, putative, unclassified
LOC_Os05g04350	Os.46012.3.S1_x_at	7/11	5	+	1961409..1966184	retrotransposon protein, putative, unclassified
LOC_Os05g04350	Os.27088.1.A1_x_at	2/11	5	+	1961409..1966184	retrotransposon protein, putative, unclassified
LOC_Os05g04350	Os.54691.1.S1_x_at	1/11	5	+	1961409..1966184	retrotransposon protein, putative, unclassified
LOC_Os05g04360	Os.9653.1.S1_s_at	11/11	5	+	1972268..1974927	Protein phosphatase 2C containing protein, expressed
LOC_Os05g04360	Os.9653.1.S1_at	11/11	5	+	1972268..1974927	Protein phosphatase 2C containing protein, expressed
LOC_Os05g04370	OsAffx.14539.1.S1_at	11/11	5	+	1976238..1980811	expressed protein
LOC_Os05g04370	Os.9837.1.S1_s_at	11/11	5	+	1976238..1980811	expressed protein

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Gene Ontology Classification

GO id	Type	Name
GO:0006306	biological_process	DNA methylation
GO:0006346	biological_process	methylation-dependent chromatin silencing
GO:0005634	cellular_component	nucleus
GO:0003886	molecular_function	DNA (cytosine-5-)-methyltransferase activity
GO:0008168	molecular_function	methyltransferase activity
GO:0008170	molecular_function	N-methyltransferase activity

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.35482.1.S1_at--705--845	1	Chr05:1951552..1951576 (25 bp)	TGGCCTTGTAGGATGGTGTAGCATT	LOC_Os05g04330
Os.35482.1.S1_at--634--81	1	Chr05:1951564..1951588 (25 bp)	ATGGTGTAGCATTAGCATAGCATCA	LOC_Os05g04330
Os.35482.1.S1_at--950--695	1	Chr05:1951569..1951593 (25 bp)	GTAGCATTAGCATAGCATCATGTGG	LOC_Os05g04330
Os.35482.1.S1_at--747--999	1	Chr05:1951581..1951605 (25 bp)	TAGCATCATGTGGATCTGTAGGTGA	LOC_Os05g04330
Os.35482.1.S1_at--532--351	1	Chr05:1951587..1951611 (25 bp)	CATGTGGATCTGTAGGTGATGTGTC	LOC_Os05g04330
Os.35482.1.S1_at--1075--47	1	Chr05:1951594..1951618 (25 bp)	ATCTGTAGGTGATGTGTCATGGAGC	LOC_Os05g04330
Os.35482.1.S1_at--447--775	1	Chr05:1951601..1951625 (25 bp)	GGTGATGTGTCATGGAGCAGTTGCT	LOC_Os05g04330
Os.35482.1.S1_at--628--927	1	Chr05:1951655..1951679 (25 bp)	TCCGCAGAAACATTGCGATGGCTGT	LOC_Os05g04330
Os.35482.1.S1_at--664--9	1	Chr05:1951684..1951708 (25 bp)	ATTCGTTACATTGCATTAATTACCC	LOC_Os05g04330
Os.35482.1.S1_at--268--677	1	Chr05:1951688..1951712 (25 bp)	GTTACATTGCATTAATTACCCTTTC	LOC_Os05g04330
Os.35482.1.S1_at--929--11	1	Chr05:1951698..1951722 (25 bp)	ATTAATTACCCTTTCATGTTCCTGG	LOC_Os05g04330

Target Sequence

TGGCCTTGTAGGATGGTGTAGCATTAGCATAGCATCATGTGGATCTGTAGGTGATGTGTCATGGAGCAGTTGCTNTCAGA
CAACTTTAAATGTTATGTTGATNTCCGCAGAAACATTGCGATGGCTGTTAGNATTCGTTACATTGCATTAATTACCCTTT
CATGTTCCTGG

BLASTn GenBank NR

Expression Profiles

Gene Chronologer
Gene Chronologer (Grouped)
Heterosis View
Gene Correlator (coexpression analysis)
SALK RiceGE
Rice MPSS MPSS logo

RiceArray Coexpression Database

Miscellaneous

SNP data between Minghui 63 and Zhenshan 97 from OryzaSNP project:

Putative homologies in rice

Putative homologies in arabidopsis