Browse Element(s) Details


Os.16748.1.S1_s_at

Description gb:CF334697
DB_XREF= gi:33817728
DB_XREF=JMT--04-B11.b1
CLONE=JMT--04-B11
TID=Os.16748.1
CNT=8
FEA=EST
TIER=ConsEnd
STK=0
UG=Os.16748 (NCBI UniGene Cluster)
UG_TITLE=Transcribed sequence with weak similarity to protein ref:NP_196554.1 (A.thaliana) AAB95261.1) (Arabidopsis thaliana)
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g4915011/11RNA polymerase II 15.9 kDa subunit, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g49100OsAffx.29218.1.S1_s_at8/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49100Os.55650.1.A1_at7/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49100OsAffx.21756.5.A1_x_at4/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49100Os.7307.3.S1_x_at2/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49100Os.52979.1.S1_at2/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49100Os.22646.1.S1_at1/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49100OsAffx.2057.3.S1_at1/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49100Os.22646.1.S1_x_at1/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49100OsAffx.13325.1.S1_at1/112+30020386..30024038retrotransposon protein, putative, unclassified
LOC_Os02g49110OsAffx.5954.4.S1_x_at7/112+30026085..30027236hypothetical protein
LOC_Os02g49120OsAffx.5954.1.S1_x_at6/112+30028827..30033963retrotransposon protein, putative, unclassified
LOC_Os02g49120OsAffx.5954.5.S1_x_at3/112+30028827..30033963retrotransposon protein, putative, unclassified
LOC_Os02g49120OsAffx.5954.3.S1_x_at3/112+30028827..30033963retrotransposon protein, putative, unclassified
LOC_Os02g49130Os.27311.1.A1_at11/112+30038350..30041663expressed protein
LOC_Os02g49130OsAffx.12558.1.S1_at9/112+30038350..30041663expressed protein
LOC_Os02g49130OsAffx.8676.1.S1_at1/112+30038350..30041663expressed protein
LOC_Os02g49130OsAffx.3509.1.S1_at1/112+30038350..30041663expressed protein
LOC_Os02g49130OsAffx.22651.3.A1_x_at1/112+30038350..30041663expressed protein
LOC_Os02g49140Os.16235.1.S1_at10/112+30045802..30047497Glycosyltransferase 6, putative, expressed
LOC_Os02g49150Os.16748.1.S1_s_at11/112+30047595..30052674RNA polymerase II 15.9 kDa subunit, putative, expressed
LOC_Os02g49150OsAffx.12560.1.S1_x_at11/112+30047595..30052674RNA polymerase II 15.9 kDa subunit, putative, expressed
LOC_Os02g49160OsAffx.12561.1.S1_s_at11/112+30058614..30060286AUX/IAA family protein, expressed
LOC_Os02g49160Os.55536.1.S1_at10/112+30058614..30060286AUX/IAA family protein, expressed
LOC_Os02g49160Os.17655.1.S1_at10/112+30058614..30060286AUX/IAA family protein, expressed
LOC_Os02g49170OsAffx.24795.1.S1_at11/112+30060535..30061167hypothetical protein
LOC_Os02g49180NANA2+30061902..30065776RNA polymerase Rpb3/Rpb11 dimerisation domain containing protein
LOC_Os02g49190Os.18189.1.S1_at11/112+30066068..30069005SNF5/SMARCB1/INI1 family protein, expressed
LOC_Os02g49200OsAffx.3005.2.S1_at11/112+30072777..30074858hypothetical protein
LOC_Os02g49210OsAffx.3005.1.S1_at11/112+30075722..30079876hypothetical protein
LOC_Os02g49210OsAffx.3005.2.S1_at9/112+30075722..30079876hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0006366biological_processtranscription from RNA polymerase II promoter
GO:0005665cellular_componentDNA-directed RNA polymerase II, core complex
GO:0003899molecular_functionDNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.16748.1.S1_s_at--1081--251Chr02:30048893..30048917 (25 bp)
ATATGCCTCCAAACTCTTGCATTTT
LOC_Os02g49150
Os.16748.1.S1_s_at--363--4471Chr02:30048889..30048913 (25 bp)
GCCTCCAAACTCTTGCATTTTAATG
LOC_Os02g49150
Os.16748.1.S1_s_at--721--5591Chr02:30048837..30048861 (25 bp)
GAAATTCATGAGCATATGGCTATCT
LOC_Os02g49150
Os.16748.1.S1_s_at--450--5931Chr02:30048828..30048852 (25 bp)
GAGCATATGGCTATCTTATCAGAGG
LOC_Os02g49150
Os.16748.1.S1_s_at--836--851Chr02:30048822..30048846 (25 bp)
ATGGCTATCTTATCAGAGGATCCAA
LOC_Os02g49150
Os.16748.1.S1_s_at--1139--6351Chr02:30048804..30048828 (25 bp)
GATCCAAAGATCAAAATTCCAGAGT
LOC_Os02g49150
Os.16748.1.S1_s_at--409--91Chr02:30048672..30048813 (25 bp)
ATTCCAGAGTCATTTGATAAGGCTT
LOC_Os02g49150
Os.16748.1.S1_s_at--177--10791Chr02:30048659..30048683 (25 bp)
TTGATAAGGCTTTCCAATATGTGAA
LOC_Os02g49150
Os.16748.1.S1_s_at--457--771Chr02:30048363..30048387 (25 bp)
ATGTGCTTGATAGCGAACGTTGGAC
LOC_Os02g49150
Os.16748.1.S1_s_at--218--6451Chr02:30048202..30048226 (25 bp)
GATCACTCAACGAAAGTCCCATCAT
LOC_Os02g49150
Os.16748.1.S1_s_at--691--9511Chr02:30048171..30048195 (25 bp)
TCTCACTGCGCTTGCTGACATAAAA
LOC_Os02g49150
Target Sequence 
ATATGCCTCCAAACTCTTGCATTTTAATGAATTGTGAAGTAGCAGAACTATTGCAAGAAATTCATGAGCATATGGCTATC
TTATCAGAGGATCCAAAGATCAAAATTCCAGAGTCATTTGATAAGGCTTTCCAATATGTGAAAGAAGGAAATCAGTTTTC
CNCCGCACAGTNTGTGAAACAAGTCNTAGACCCTNTTAGAAAATATGGTGTTAGTGATGGAGANATGTGCTTGATAGCGA
ACGTTGGACNTGAGNCCATTGAAGAGGTTTATGCGNTAGTNCCATCCCTGAAGGCCANTAGATCACTCAACGAAAGTCCC
ATCATGGAGGCTCTCACTGCGCTTGCTGACATAAAA

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.16748.1.S1_s_at     

Putative homologies in rice

Putative homologies in arabidopsis