Browse Element(s) Details


Os.5510.1.S1_at

Description gb:AK068844.1
DB_XREF= gi:32978869
TID=Os.5510.1
CNT=16
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.5510 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-016-H08, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013163O03, full insert sequence.
FL= gb:AK068844.1 gb:AK121793.1 gb:AK061402.1 gb:AK103978.1 gb:AK120034.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g0228411/11DNA-directed RNA polymerase II 36 kDa polypeptide A, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g02250Os.54641.1.S1_at11/119+905903..908918transposon protein, putative, unclassified, expressed
LOC_Os09g02250Os.26787.2.S1_x_at1/119+905903..908918transposon protein, putative, unclassified, expressed
LOC_Os09g02250Os.41315.1.S1_x_at1/119+905903..908918transposon protein, putative, unclassified, expressed
LOC_Os09g02260OsAffx.6152.1.S1_at11/119+914398..916958pentatricopeptide, putative, expressed
LOC_Os09g02270Os.9823.1.S1_at11/119+919575..925013cyclase family protein, putative, expressed
LOC_Os09g02284OsAffx.17530.1.S1_s_at11/119+926068..933049DNA-directed RNA polymerase II 36 kDa polypeptide A, putative, expressed
LOC_Os09g02284Os.5510.1.S1_at11/119+926068..933049DNA-directed RNA polymerase II 36 kDa polypeptide A, putative, expressed
LOC_Os09g02284OsAffx.17530.1.S1_at1/119+926068..933049DNA-directed RNA polymerase II 36 kDa polypeptide A, putative, expressed
LOC_Os09g02300Os.47346.1.A1_x_at11/119+936054..937276expressed protein
LOC_Os09g02310OsAffx.29683.1.S1_at10/119+946473..947054hypothetical protein
LOC_Os09g02320OsAffx.10222.1.S1_x_at1/119+952032..953641hypothetical protein
LOC_Os09g02330OsAffx.17531.1.S1_at11/119+956941..957726hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0006350biological_processtranscription
GO:0005634cellular_componentnucleus
GO:0005730cellular_componentnucleolus
GO:0005737cellular_componentcytoplasm
GO:0003677molecular_functionDNA binding
GO:0003899molecular_functionDNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5510.1.S1_at--1030--8591Chr09:932449..932473 (25 bp)
TGGTGCCCACCTTGTTGGAGGCTAA
LOC_Os09g02284
Os.5510.1.S1_at--386--6931Chr09:932507..932531 (25 bp)
GTAGGTTTCTCTAACTATCGTGCTA
LOC_Os09g02284
Os.5510.1.S1_at--425--472Chr09:932580..932604 (25 bp)
ATCTCCCTGATCTGTGCCATTAAAT
LOC_Os09g02284
Os.5510.1.S1_at--223--491Chr09:932603..932627 (25 bp)
ATCTGTGCTGGAACTTTGTGTGGAC
LOC_Os09g02284
Os.5510.1.S1_at--1071--8511Chr09:932623..932647 (25 bp)
TGGACGCACCAGACTACTGTTCAAT
LOC_Os09g02284
Os.5510.1.S1_at--194--3031Chr09:932714..932738 (25 bp)
AATGCTGTTCACCTGTGATGTGTCT
LOC_Os09g02284
Os.5510.1.S1_at--237--6611Chr09:932763..932787 (25 bp)
GATTGGCCTACGGTATATGCTACGG
LOC_Os09g02284
Os.5510.1.S1_at--76--271Chr09:932777..932801 (25 bp)
ATATGCTACGGCTTGCTGTGTTGAA
LOC_Os09g02284
Os.5510.1.S1_at--137--3031Chr09:932800..932824 (25 bp)
AATGCTGGGTTTTGTGCAGGTCTCC
LOC_Os09g02284
Os.5510.1.S1_at--832--1651Chr09:932943..932967 (25 bp)
AGCGCGCGTGCATGTGGATCAGTAC
LOC_Os09g02284
Os.5510.1.S1_at--931--2991Chr09:933024..933048 (25 bp)
AATGTTGGATCTTTCCTGCTTCTTG
LOC_Os09g02284
Target Sequence 
TGGTGCCCACCTTGTTGGAGGCTAAGCGCAGAGCTGCTTGTCTTGTGTTACCCACAAAGTAGGTTTCTCTAACTATCGTG
CTAGAGGCAAAACATGATGGTTTCTTCGTTTGGATCAATCTAGTACATGTAATCTCCCTGATCTGTGCCATTAAATCTGT
GCTGGAACTTTGTGTGGACGCACCAGACTACTGTTCAATTTGATGGCAAATCGACACACCAGCCAGCTCATCTCTGGGAC
AAATGTGGAGCTGCTAGTAATACTGAATGCTGTTCACCTGTGATGTGTCTTTGGGACTTGCAGCCCGTCGTTTTGATTGG
CCTACGGTATATGCTACGGCTTGCTGTGTTGAATGCTGGGTTTTGTGCAGGTCTCCCCAGATTCATATGCTCAATGCAAT
GTGGCGTTTAATGCTGTACATCTCCAGGTTAATTGCTGAATAGTGGTGGTACTAGATGGTTTGATGGATTCGCTGAGCGA
GATGCGTGGAGTTAAGCGCGCGTGCATGTGGATCAGTACTACGATCTTGATGGATGTACCAAATGATTTGGTAATGTACT
GATATTTTGGACCTAAATGTTGGATCTTTCCTGCTTCTTG

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.5510.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis