Browse Element(s) Details


Os.50406.1.S1_x_at

Description gb:AK069081.1
DB_XREF= gi:32979105
TID=Os.50406.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.50406 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023006B19, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023006B19, full insert sequence.
FL= gb:AK069081.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g1461011/11RNase3 domain containing protein, expressed
LOC_Os03g3874011/11Type III restriction enzyme, res subunit family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g14560OsAffx.17693.1.S1_at10/119+8622666..8625179hypothetical protein
LOC_Os09g14570OsAffx.17694.1.S1_x_at11/119+8628024..8628737tropinone reductase homolog At1g07440, putative
LOC_Os09g14570OsAffx.17694.1.S1_at11/119+8628024..8628737tropinone reductase homolog At1g07440, putative
LOC_Os09g14580OsAffx.25423.2.S1_x_at10/119+8629074..8632197Protein kinase domain containing protein
LOC_Os09g14580Os.43946.3.S1_x_at7/119+8629074..8632197Protein kinase domain containing protein
LOC_Os09g14590OsAffx.6272.1.S1_at11/119+8635423..8640334Proteasome maturation factor UMP1 family protein
LOC_Os09g14600Os.11929.1.S1_at11/119+8643136..8645464peroxisomal membrane protein, putative, expressed
LOC_Os09g14610Os.50406.1.S1_x_at11/119+8645682..8653883RNase3 domain containing protein, expressed
LOC_Os09g14610Os.28186.2.S1_s_at11/119+8645682..8653883RNase3 domain containing protein, expressed
LOC_Os09g14610Os.28186.1.S1_s_at10/119+8645682..8653883RNase3 domain containing protein, expressed
LOC_Os09g14614Os.49341.1.S1_x_at11/119+8664791..8666872expressed protein
LOC_Os09g14614Os.49341.1.S1_at10/119+8664791..8666872expressed protein
LOC_Os09g14614Os.23317.1.S1_at4/119+8664791..8666872expressed protein
LOC_Os09g14614Os.51537.1.S1_at1/119+8664791..8666872expressed protein
LOC_Os09g14620NANA9+8670528..8673278retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g14630Os.9332.2.S1_at1/119+8676237..8679936transposon protein, putative, unclassified
LOC_Os09g14630Os.9332.2.S1_x_at1/119+8676237..8679936transposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
GO:0000910biological_processcytokinesis
GO:0006396biological_processRNA processing
GO:0009880biological_processembryonic pattern specification
GO:0009908biological_processflower development
GO:0010050biological_processvegetative phase change
GO:0010098biological_processsuspensor development
GO:0010228biological_processvegetative to reproductive phase transition
GO:0030422biological_processRNA interference, production of siRNA
GO:0031053biological_processprimary microRNA processing
GO:0035279biological_processmiRNA-mediated gene silencing, mRNA cleavage
GO:0005634cellular_componentnucleus
GO:0003723molecular_functionRNA binding
GO:0003725molecular_functiondouble-stranded RNA binding
GO:0004525molecular_functionribonuclease III activity
GO:0005515molecular_functionprotein binding
GO:0008026molecular_functionATP-dependent helicase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.50406.1.S1_x_at--402--472Chr09:8649186..8649210 (25 bp)
ATCTGTCTTTTATCACTGGTACTAG
LOC_Os09g14610
Os.50406.1.S1_x_at--107--7852Chr09:8649169..8649193 (25 bp)
GGTACTAGATGATACTCTTGCCCTT
LOC_Os09g14610
Os.50406.1.S1_x_at--20--312Chr09:8649158..8649182 (25 bp)
ATACTCTTGCCCTTTATGTTTGGTT
LOC_Os09g14610
Os.50406.1.S1_x_at--1117--6852Chr09:8649141..8649165 (25 bp)
GTTTGGTTGGCAGGGTTACATTCAT
LOC_Os09g14610
Os.50406.1.S1_x_at--21--7972Chr09:8649091..8649115 (25 bp)
GGATCATCCCTTGCTTGGACTATGA
LOC_Os09g14610
Os.50406.1.S1_x_at--15--12Chr09:8649050..8649074 (25 bp)
AAAATTTCCTTTCTGGCACCCAATG
LOC_Os09g14610
Os.50406.1.S1_x_at--643--6592Chr09:8648985..8649009 (25 bp)
GATTGCGGATTCAGTTGAGGCCTTA
LOC_Os09g14610
Os.50406.1.S1_x_at--947--2112Chr09:8648757..8648781 (25 bp)
ACATGGCTCATATCAGACTTCTGGC
LOC_Os09g14610
Os.50406.1.S1_x_at--486--8452Chr09:8648739..8648760 (22 bp)
TGGCCCTACTTCATGCTATCAGAGG
LOC_Os09g14610
Os.50406.1.S1_x_at--443--6212Chr09:8647169..8647193 (25 bp)
GAGGCTCGAGTTTCTTGGAGATGCT
LOC_Os09g14610
Os.50406.1.S1_x_at--701--4872Chr09:8647147..8647171 (25 bp)
GCTATTTTGGATCATCTTTTCACTG
LOC_Os09g14610
Target Sequence 
ATCTGTCTTTTATCACTGGTACTAGATGATACTCTTGCCCTTTATGTTTGGTTGGCAGGGTTACATTCATGCTGAGGAGT
TTAATCCAAGAGATTGGATCATCCCTTGCTTGGACTATGATGAGCGTGGTAACAAAAAAATTTCCTTTCTGGCACCCAAT
GGTATGTACAGCCAAAGGAAAATGTCTATTAAAAGTAAGAGGATTGCGGATTCAGTTGAGGCCTTAATTGGGGCTTACCT
CAGTACTGCTGGGGAAAAGGCAGCATTTCTTTTGATGAAATCATTAGGGATGAATATAGAATTTCACACTGAAATTCCAG
TTGAAAGGAAAATTTCAATGAAAGCTGAAGAGTTCATTGATGTGAGGAGCTTAGAGGGAATGCTTGGTTACAAGTTCAAT
GATTCTTTATTATTGCTCGAAGCATTGACACATGGCTCATATCAGACTTCTGGCCCTACTTCATGCTATCAGAGGCTCGA
GTTTCTTGGAGATGCTATTTTGGATCATCTTTTCACTG

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.50406.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis