Browse Element(s) Details


OsAffx.12560.1.S1_x_at

Description tigr:9630.m04803
TID=OsAffx.12560.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=15.9 kDa subunit of RNA polymerase II
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
OsAffx.12560.1.S1_x_at--733--4891Chr02:30048359..30048383 (25 bp)
GCTTGATAGCGAACGTTGGACCTGA
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--617--5291Chr02:30048213..30048235 (23 bp)
GAAGGCCACTAGATCACTCAACGAA
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--734--5571Chr02:30048191..30048215 (25 bp)
GAAAGTCCCATCATGGAGGCTCTCA
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--692--9511Chr02:30048171..30048195 (25 bp)
TCTCACTGCGCTTGCTGACATAAAA
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--754--5251Chr02:30048136..30048160 (25 bp)
GAATCTCCAGTGAAGCTATGCCGGT
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--911--3691Chr02:30048121..30048145 (25 bp)
CTATGCCGGTAATCCCTGTGGAGAT
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--650--9991Chr02:30048089..30048113 (25 bp)
TAGCCATACGTCTCTATCCTGATTA
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--456--10211Chr02:30048066..30048090 (25 bp)
TATTCACCTTATCGATCTCAGTTGC
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--778--9351Chr02:30047996..30048020 (25 bp)
TCGCAACTTGCGTTTGTCTTTAATG
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--172--4431Chr02:30047914..30047938 (25 bp)
GCCATGTGCACTTTACTTATCTAGG
LOC_Os02g49150
OsAffx.12560.1.S1_x_at--497--5991Chr02:30047865..30047889 (25 bp)
GAGACTACCGTATCTAACTGCAAAT
LOC_Os02g49150
Target Sequence 
GCTTGATAGCGAACGTTGGACCTGAGACCATTGAAGAGGTTTATGCGCTAGTACCATCCCTGAAGGCCACTAGATCACTC
AACGAAAGTCCCATCATGGAGGCTCTCACTGCGCTTGCTGACATAAAAGCTGCTAAGTGAATCTCCAGTGAAGCTATGCC
GGTAATCCCTGTGGAGATTTTTTGTTAGCCATACGTCTCTATCCTGATTATTCACCTTATCGATCTCAGTTGCCTTCTGA
ATCTTAAACAGATATGTTGTGGATCAAGAAATGGAGATTCGCAACTTGCGTTTGTCTTTAATGTTCTGAATGTTTTGTCA
AATCAGGTTGCGCTGTGTATGCAAAAAAAAACAACCAAGTGCCATGTGCACTTTACTTATCTAGGTCTGATAGGTTGAAC
CTGAGTTCAGAGACTACCGTATCTAACTGCAAAT

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 OsAffx.12560.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis