Browse Element(s) Details


Os.3740.3.S1_s_at

Description gb:AK072444.1
DB_XREF= gi:32982467
TID=Os.3740.3
CNT=5
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.3740 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) mRNA for dsRNA-binding protein ODB1, complete cds
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023111A18, full insert sequence.
FL= gb:AK072444.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g2416010/11Double-stranded RNA binding motif family protein, expressed
LOC_Os12g0192210/11transducin family protein, putative, expressed
LOC_Os12g073901/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g24120Os.23706.1.A1_x_at1/115+13831965..13837549retrotransposon protein, putative, unclassified
LOC_Os05g24130OsAffx.14799.1.S1_at11/115+13841888..13842130hypothetical protein
LOC_Os05g24140OsAffx.14800.1.S1_at11/115+13847796..13850669expressed protein
LOC_Os05g24150OsAffx.26994.1.S1_at11/115+13851093..13854620pentatricopeptide, putative, expressed
LOC_Os05g24150OsAffx.11634.2.S1_x_at1/115+13851093..13854620pentatricopeptide, putative, expressed
LOC_Os05g24160Os.3740.3.S1_at11/115+13861625..13868589Double-stranded RNA binding motif family protein, expressed
LOC_Os05g24160OsAffx.30773.3.S1_x_at11/115+13861625..13868589Double-stranded RNA binding motif family protein, expressed
LOC_Os05g24160Os.3740.3.S1_s_at10/115+13861625..13868589Double-stranded RNA binding motif family protein, expressed
LOC_Os05g24160Os.51834.1.S1_at5/115+13861625..13868589Double-stranded RNA binding motif family protein, expressed
LOC_Os05g24160OsAffx.30773.1.S1_x_at5/115+13861625..13868589Double-stranded RNA binding motif family protein, expressed
LOC_Os05g24160OsAffx.30773.2.S1_x_at4/115+13861625..13868589Double-stranded RNA binding motif family protein, expressed
LOC_Os05g24160OsAffx.32190.1.S1_x_at2/115+13861625..13868589Double-stranded RNA binding motif family protein, expressed
LOC_Os05g24160OsAffx.32190.1.S1_at1/115+13861625..13868589Double-stranded RNA binding motif family protein, expressed
LOC_Os05g24170Os.46012.2.S1_x_at8/115+13872144..13879440retrotransposon protein, putative, unclassified
LOC_Os05g24170Os.46012.3.S1_x_at6/115+13872144..13879440retrotransposon protein, putative, unclassified
LOC_Os05g24170Os.27088.1.A1_x_at4/115+13872144..13879440retrotransposon protein, putative, unclassified
LOC_Os05g24170Os.54691.1.S1_x_at1/115+13872144..13879440retrotransposon protein, putative, unclassified
LOC_Os05g24180OsAffx.26996.1.S1_x_at11/115+13886201..13886584hypothetical protein
LOC_Os05g24180OsAffx.26996.1.S1_at11/115+13886201..13886584hypothetical protein
LOC_Os05g24190OsAffx.19542.3.S1_x_at4/115+13891540..13895431retrotransposon protein, putative, Ty1-copia subclass

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Gene Ontology Classification
GO idTypeName
GO:0009733biological_processresponse to auxin stimulus
GO:0009735biological_processresponse to cytokinin stimulus
GO:0009737biological_processresponse to abscisic acid stimulus
GO:0009793biological_processembryonic development (sensu Magnoliophyta)
GO:0035279biological_processmiRNA-mediated gene silencing, mRNA cleavage
GO:0005634cellular_componentnucleus
GO:0005737cellular_componentcytoplasm
GO:0000166molecular_functionnucleotide binding
GO:0003725molecular_functiondouble-stranded RNA binding
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.3740.3.S1_s_at--640--3593Chr12:547565..547589 (25 bp)
CATTAGTGTTGATCCGCCGGATGTG
LOC_Os12g01922
Os.3740.3.S1_s_at--1059--4473Chr12:547550..547574 (25 bp)
GCCGGATGTGATCAAAATCTCCCCT
LOC_Os12g01922
Os.3740.3.S1_s_at--264--6273Chr12:547546..547570 (25 bp)
GATGTGATCAAAATCTCCCCTTGTG
LOC_Os12g01922
Os.3740.3.S1_s_at--816--4711NONE
GCTGGATAGATCCATTTTCTATGGC
NONE
Os.3740.3.S1_s_at--326--9194Chr12:3642869..3642890 (22 bp)
TCCAAAAGCCCTTGAAACTATTGGG
LOC_Os12g07390
Os.3740.3.S1_s_at--424--1953Chr12:546880..546904 (25 bp)
ACTATTGGGAAAACATTACACTCAC
LOC_Os12g01922
Os.3740.3.S1_s_at--751--3593Chr12:546867..546891 (25 bp)
CATTACACTCACAATATGAGCGCTG
LOC_Os12g01922
Os.3740.3.S1_s_at--56--1693Chr12:546764..546864 (25 bp)
AGCCAAAGGCTCGTTACAAGCTTCA
LOC_Os12g01922
Os.3740.3.S1_s_at--643--913Chr12:546758..546782 (25 bp)
AGGCTCGTTACAAGCTTCAGCTGGA
LOC_Os12g01922
Os.3740.3.S1_s_at--205--2713Chr12:546747..546771 (25 bp)
AAGCTTCAGCTGGATCCGACATTAG
LOC_Os12g01922
Os.3740.3.S1_s_at--355--4713Chr12:546739..546763 (25 bp)
GCTGGATCCGACATTAGAGGAAGTT
LOC_Os12g01922
Target Sequence 
CATTAGTGTTGATCCGCCGGATGTGATCAAAATCTCCCCTTGTGTAAGAAAGGAGTGCTGGATAGATCCATTTTCTATGG
CAGCTCCAAAAGCCCTTGAAACTATTGGGAAAACATTACACTCACAATATGAGCGCTGGCAGCCAAAGGCTCGTTACAAG
CTTCAGCTGGATCCGACATTAGAGGAAGTT

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:
extend bp around Os.3740.3.S1_s_at     

Putative homologies in rice

Putative homologies in arabidopsis