Browse Element(s) Details


Os.25542.1.S1_at

Description gb:AK111443.1
DB_XREF= gi:32996652
TID=Os.25542.1
CNT=10
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.25542 (NCBI UniGene Cluster)
UG_TITLE=MRNA for RNA polymerase II
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-183-A09, full insert sequence.
FL= gb:AK111443.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g4448410/11DNA-directed RNA polymerase II 135 kDa polypeptide, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g44450Os.55555.1.S1_at11/113+24963441..24964569expressed protein
LOC_Os03g44450Os.55555.1.S1_x_at11/113+24963441..24964569expressed protein
LOC_Os03g44450Os.5287.1.S1_at10/113+24963441..24964569expressed protein
LOC_Os03g44460OsAffx.32166.1218.S1_x_at3/113+24975872..24976942expressed protein
LOC_Os03g44470NANA3+24978534..24983551retrotransposon protein, putative, unclassified
LOC_Os03g44484Os.53782.1.S1_at11/113+24987908..24996309DNA-directed RNA polymerase II 135 kDa polypeptide, putative, expressed
LOC_Os03g44484OsAffx.25537.1.S1_x_at11/113+24987908..24996309DNA-directed RNA polymerase II 135 kDa polypeptide, putative, expressed
LOC_Os03g44484Os.25542.1.S1_at10/113+24987908..24996309DNA-directed RNA polymerase II 135 kDa polypeptide, putative, expressed
LOC_Os03g44500Os.40410.1.A1_s_at11/113+24996520..25005272kelch repeat-containing serine/threonine phosphoesterase family protein, putative, expressed
LOC_Os03g44510NANA3+25007771..25011029transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os03g44520Os.53631.1.S1_at11/113+25015671..25016551expressed protein
LOC_Os03g44530Os.54360.1.S1_at11/113+25017367..25020869expressed protein
LOC_Os03g44530Os.48238.1.S1_x_at9/113+25017367..25020869expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0006306biological_processDNA methylation
GO:0006350biological_processtranscription
GO:0030422biological_processRNA interference, production of siRNA
GO:0031047biological_processRNA-mediated gene silencing
GO:0035194biological_processRNA-mediated posttranscriptional gene silencing
GO:0005634cellular_componentnucleus
GO:0005720cellular_componentnuclear heterochromatin
GO:0016591cellular_componentDNA-directed RNA polymerase II, holoenzyme
GO:0030880cellular_componentRNA polymerase complex
GO:0003677molecular_functionDNA binding
GO:0003899molecular_functionDNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.25542.1.S1_at--781--4931Chr03:24995742..24995766 (25 bp)
GCTTGTCGTACTATGTCTTCGTTCA
LOC_Os03g44484
Os.25542.1.S1_at--28--5571Chr03:24995818..24995842 (25 bp)
GAAAGCAGTCAGTAGGCCACATCCT
LOC_Os03g44484
Os.25542.1.S1_at--472--8451Chr03:24995832..24995856 (25 bp)
GGCCACATCCTCGAGTTATATATAT
LOC_Os03g44484
Os.25542.1.S1_at--993--231Chr03:24995849..24995873 (25 bp)
ATATATATCCCTGGTGTGCTGTGCC
LOC_Os03g44484
Os.25542.1.S1_at--461--9131Chr03:24995865..24995889 (25 bp)
TGCTGTGCCCTTGGATTATGCCAAA
LOC_Os03g44484
Os.25542.1.S1_at--546--3111Chr03:24996056..24996080 (25 bp)
AATATTGCCTGTATTGGCTCTACCA
LOC_Os03g44484
Os.25542.1.S1_at--337--8311Chr03:24996071..24996095 (25 bp)
GGCTCTACCAGCACGATATCAAAAT
LOC_Os03g44484
Os.25542.1.S1_at--219--6771NONE
GTTAACTACTGCTAGCTTGCTGTCG
NONE
Os.25542.1.S1_at--501--7711Chr03:24996162..24996186 (25 bp)
GGGTGCGTCATGAATTAGCCTCAAT
LOC_Os03g44484
Os.25542.1.S1_at--967--9871Chr03:24996187..24996211 (25 bp)
TACATTTTTTCTACTGAGGCCTGGA
LOC_Os03g44484
Os.25542.1.S1_at--188--6231Chr03:24996202..24996226 (25 bp)
GAGGCCTGGATGTACTTCGATGTTC
LOC_Os03g44484
Target Sequence 
GCTTGTCGTACTATGTCTTCGTTCATAGTCAATACTTAAATCTAACTTGGGNNNNNNNNNNNCTTAGCGGTCTGACCCCC
TGAGGCAGAAAGCAGTCAGTAGGCCACATCCTCGAGTTATATATATCCCTGGTGTGCTGTGCCCTTGGATTATGCCAAAT
TGACGCCATGGGCGAAGTGGTGCAAAGAAATTTTGTTTCTTGTATACTAGGGATACGGATTAAGGGACTGTACTGAACAA
TCTTTTACCGGGACTAAAATGTTGTTGTTTGTACTGTTTCTTTTTTATTTTTTTTTGGCTTTTGGGGATACTAGATCCCA
ACTCGAATATTGCCTGTATTGGCTCTACCAGCACGATATCAAAATTGTTTGATGAGAGATCTTGTAAGAAAATAGTAATA
ATTTAGTGTTAACTACTGCTAGCTTGCTGTCGGGTGCGTCATGAATTAGCCTCAATTACATTTTTTCTACTGAGGCCTGG
ATGTACTTCGATGTTC

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.25542.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis