Browse Element(s) Details


Os.54260.1.S1_at

Description gb:AK102871.1
DB_XREF= gi:32988080
TID=Os.54260.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54260 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033112A19, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033112A19, full insert sequence.
FL= gb:AK102871.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g3907011/11TATA-binding protein 2, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g39030OsAffx.20019.1.S1_at10/1112+23973808..23976462BED zinc finger family protein
LOC_Os12g39030Os.50043.1.A1_at1/1112+23973808..23976462BED zinc finger family protein
LOC_Os12g39040NANA12+23979837..23980325retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g39050OsAffx.20020.1.S1_x_at11/1112+23994523..23995360hypothetical protein
LOC_Os12g39060OsAffx.20021.1.S1_at11/1112+23995614..23995970hypothetical protein
LOC_Os12g39070Os.54260.1.S1_at11/1112+23997666..24002140TATA-binding protein 2, putative, expressed
LOC_Os12g39070Os.53520.1.A1_at1/1112+23997666..24002140TATA-binding protein 2, putative, expressed
LOC_Os12g39080Os.16012.1.S1_at11/1112+24004084..24006046amino acid permease family protein, putative, expressed
LOC_Os12g39080OsAffx.13037.1.S1_x_at1/1112+24004084..24006046amino acid permease family protein, putative, expressed
LOC_Os12g39090Os.54688.1.S1_at11/1112+24011650..24013552expressed protein
LOC_Os12g39100Os.55696.1.S1_at11/1112+24019122..24021234expressed protein
LOC_Os12g39110Os.14150.1.S1_at11/1112+24027070..24031072Zinc finger, C3HC4 type family protein, expressed
LOC_Os12g39110OsAffx.16870.1.S1_x_at1/1112+24027070..24031072Zinc finger, C3HC4 type family protein, expressed
LOC_Os12g39110OsAffx.19796.1.S1_x_at1/1112+24027070..24031072Zinc finger, C3HC4 type family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006352biological_processtranscription initiation
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003702molecular_functionRNA polymerase II transcription factor activity
GO:0017025molecular_functionTATA-binding protein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54260.1.S1_at--44--5531Chr12:24001327..24001796 (25 bp)
GAAAAGTCCAGCAATGATAACCTAT
LOC_Os12g39070
Os.54260.1.S1_at--497--811Chr12:24001795..24001819 (25 bp)
ATGGAGGTCACAACTACAACGCTTC
LOC_Os12g39070
Os.54260.1.S1_at--1087--2591Chr12:24001812..24001836 (25 bp)
AACGCTTCCTTGAGGATTTTGCTGC
LOC_Os12g39070
Os.54260.1.S1_at--974--5871Chr12:24001908..24001932 (25 bp)
GAGCCCCTGGATGAATGAGCACTGT
LOC_Os12g39070
Os.54260.1.S1_at--199--1511Chr12:24001925..24001949 (25 bp)
AGCACTGTAGACTTGTAGCTGGGTG
LOC_Os12g39070
Os.54260.1.S1_at--573--731Chr12:24001953..24001977 (25 bp)
ATGTTGTTAGTAGTCTCTTGTGGCA
LOC_Os12g39070
Os.54260.1.S1_at--9--7171Chr12:24001965..24001989 (25 bp)
GTCTCTTGTGGCATGGAGTTCAGTC
LOC_Os12g39070
Os.54260.1.S1_at--570--6071Chr12:24001980..24002004 (25 bp)
GAGTTCAGTCCAACCGATCTGATGG
LOC_Os12g39070
Os.54260.1.S1_at--953--6391Chr12:24001995..24002019 (25 bp)
GATCTGATGGAGTTTTCGTACGTTT
LOC_Os12g39070
Os.54260.1.S1_at--250--10651Chr12:24002039..24002063 (25 bp)
TTCCCTTTTCTTCCCAATAGACATG
LOC_Os12g39070
Os.54260.1.S1_at--1085--3491Chr12:24002109..24002133 (25 bp)
CATGGACTGTGGATGCTTAGCGTTT
LOC_Os12g39070
Target Sequence 
GAAAAGTCCAGCAATGATAACCTATGGAGGTCACAACTACAACGCTTCCTTGAGGATTTTGCTGCCTTGTAACTGCTAAT
TTTAATCTGTACATATATGTAGTCTGGAGGGGCGTACAGCATCTTGTAATTTATGTGAGCCCCTGGATGAATGAGCACTG
TAGACTTGTAGCTGGGTGAGTATGTTGTTAGTAGTCTCTTGTGGCATGGAGTTCAGTCCAACCGATCTGATGGAGTTTTC
GTACGTTTGTAGCCCTTGCCGATCTTTTTCCCTTTTCTTCCCAATAGACATGTTGCTAAACTTTTACTAACTTGTTAACA
GACAGACAGAATGATAACATGGACTGTGGATGCTTAGCGTTT

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.54260.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis