Browse Element(s) Details


Os.54553.1.S1_at

Description gb:AK105583.1
DB_XREF= gi:32990792
TID=Os.54553.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54553 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-128-E09, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-128-E09, full insert sequence.
FL= gb:AK105583.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g3124011/11Zinc finger, C2H2 type family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g31200NANA3+17718080..17722450retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g31210NANA3+17729241..17731146UDP-glucose 6-dehydrogenase, putative, expressed
LOC_Os03g31230Os.7405.1.S1_at11/113+17735318..17739005Myb-like DNA-binding domain containing protein, expressed
LOC_Os03g31240Os.54553.1.S1_at11/113+17742233..17744024Zinc finger, C2H2 type family protein, expressed
LOC_Os03g31250Os.49936.2.A1_at3/113+17747310..17750642retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g31250Os.50457.1.S1_at1/113+17747310..17750642retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g31250OsAffx.22945.1.S1_at1/113+17747310..17750642retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g31254OsAffx.4929.1.S1_at1/113+17757335..17757637hypothetical protein
LOC_Os03g31260OsAffx.25313.1.S1_at10/113+17759596..17760867serine/threonine-protein kinase receptor precursor, putative
LOC_Os03g31270OsAffx.25314.1.S1_at11/113+17766495..17768110hypothetical protein
LOC_Os03g31270OsAffx.32036.1.S1_at4/113+17766495..17768110hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0009409biological_processresponse to cold
GO:0042538biological_processhyperosmotic salinity response
GO:0045449biological_processregulation of transcription
GO:0005634cellular_componentnucleus
GO:0003676molecular_functionnucleic acid binding
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0008270molecular_functionzinc ion binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54553.1.S1_at--683--3191Chr03:17742734..17742758 (25 bp)
CAACTAAATTCGTGTGCCCAATCTG
LOC_Os03g31240
Os.54553.1.S1_at--513--8691Chr03:17742722..17742746 (25 bp)
TGTGCCCAATCTGCTCCAAGGAGTT
LOC_Os03g31240
Os.54553.1.S1_at--214--5751Chr03:17742621..17742645 (25 bp)
GACGGCATTGTCAAGCTGGAGCAAC
LOC_Os03g31240
Os.54553.1.S1_at--31--10271Chr03:17742595..17742619 (25 bp)
TTTGCTCGCCGACAGGTTTCTTGAT
LOC_Os03g31240
Os.54553.1.S1_at--828--451Chr03:17742572..17742596 (25 bp)
ATCTCAATCTGCCAGCTCCAGGAGG
LOC_Os03g31240
Os.54553.1.S1_at--547--4751Chr03:17742511..17742535 (25 bp)
GCTGAAGCTTAATTTTGGTTCCTCC
LOC_Os03g31240
Os.54553.1.S1_at--888--8571Chr03:17742496..17742520 (25 bp)
TGGTTCCTCCAAGTTTTGACATTTT
LOC_Os03g31240
Os.54553.1.S1_at--1077--3131Chr03:17742436..17742460 (25 bp)
AATTCATTCTTTTGGAGTTTCAGCT
LOC_Os03g31240
Os.54553.1.S1_at--767--3811Chr03:17742359..17742383 (25 bp)
CTCCAGATTTTTCGACCAGTTTTGT
LOC_Os03g31240
Os.54553.1.S1_at--37--1131Chr03:17742325..17742349 (25 bp)
AGTGCTTTTTGTTAGCTCTGTTCTG
LOC_Os03g31240
Os.54553.1.S1_at--1050--6711Chr03:17742306..17742330 (25 bp)
GTTCTGTTTTTGCTCCACATTGGGA
LOC_Os03g31240
Target Sequence 
CAACTAAATTCGTGTGCCCAATCTGCTCCAAGGAGTTCGGCTCCGGTCAGGCTCTCGGCGGGCACAAGCGGTCGCACTCG
ATCGCAGGCGAGCTCTACGAGCGCGGCCACGCCGACGGCATTGTCAAGCTGGAGCAACCTTTGCTCGCCGACAGGTTTCT
TGATCTCAATCTGCCAGCTCCAGGAGGAGATGATGGCTGAAGCTTAATTAGGAGGAGATGATGGCTGAAGCTTAATTTTG
GTTCCTCCAAGTTTTGACATTTTTTGGGGAGAGCATGGGTATGTACAGATTCAGATTCAATTCATTCTTTTGGAGTTTCA
GCTTAGTTGATCATGAGGGATTAAATAATTATATTGTTAGGTCTTTAGTTAATTACTCCAGATTTTTCGACCAGTTTTGT
TTTGAATTTAGTGCTTTTTGTTAGCTCTGTTCTGTTTTTGCTCCACATTGGGA

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.54553.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis