Browse Element(s) Details


Os.25546.1.S1_at

Description gb:AK109307.1
DB_XREF= gi:32994516
TID=Os.25546.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.25546 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-188-E12, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-188-E12, full insert sequence.
FL= gb:AK109307.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g5114011/11Helix-loop-helix DNA-binding domain containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g51110OsAffx.21556.1.S1_at3/111+29684385..29684902hypothetical protein
LOC_Os01g51120Os.7165.1.S1_at11/111+29691374..29694876Vesicle transport v-SNARE 13, putative, expressed
LOC_Os01g51120Os.37895.1.S1_x_at9/111+29691374..29694876Vesicle transport v-SNARE 13, putative, expressed
LOC_Os01g51130OsAffx.13097.1.S1_s_at11/111+29696595..29702970transposon protein, putative, Mutator sub-class
LOC_Os01g51140Os.25546.1.S1_at11/111+29709555..29712493Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os01g51140Os.32078.1.S1_at11/111+29709555..29712493Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os01g51154Os.7810.1.S1_at11/111+29732470..29738221Single myb histone 4, putative, expressed
LOC_Os01g51154OsAffx.23742.1.S1_at8/111+29732470..29738221Single myb histone 4, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0045449biological_processregulation of transcription
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.25546.1.S1_at--330--10151Chr01:29711791..29711815 (25 bp)
TATCCTGTTCCCTGTATATGCATAC
LOC_Os01g51140
Os.25546.1.S1_at--729--6471Chr01:29711760..29711784 (25 bp)
GATACAGTAGTTTTCTCGACATGAG
LOC_Os01g51140
Os.25546.1.S1_at--365--651Chr01:29711730..29711754 (25 bp)
ATGCATGCAGAATTTCACGCTCGAA
LOC_Os01g51140
Os.25546.1.S1_at--774--771Chr01:29711589..29711613 (25 bp)
ATGTGCAACGCACAGCCTGCAAGTT
LOC_Os01g51140
Os.25546.1.S1_at--819--351Chr01:29711562..29711586 (25 bp)
ATAAGCATCCGCTCGTTCAGTTAAG
LOC_Os01g51140
Os.25546.1.S1_at--5--6771Chr01:29711543..29711567 (25 bp)
GTTAAGCTGGCAGATCGACCACACA
LOC_Os01g51140
Os.25546.1.S1_at--1021--6411Chr01:29711488..29711512 (25 bp)
GATCTAACTAGCTCTTGGTGTAATA
LOC_Os01g51140
Os.25546.1.S1_at--1033--4551Chr01:29711365..29711389 (25 bp)
GCGCCACTGTTTCTTGATGCTGATT
LOC_Os01g51140
Os.25546.1.S1_at--1150--8731Chr01:29711333..29711357 (25 bp)
TGTAATTCCATCGATCACGCATGCG
LOC_Os01g51140
Os.25546.1.S1_at--394--611Chr01:29711313..29711337 (25 bp)
ATGCGCGCGCTCTTCTTGTAATTAT
LOC_Os01g51140
Os.25546.1.S1_at--173--9751Chr01:29711278..29711302 (25 bp)
TAATTGCTCGTCTTGATCGGTGTCT
LOC_Os01g51140
Target Sequence 
TATCCTGTTCCCTGTATATGCATACTATTTCGATACAGTAGTTTTCTCGACATGAGATTTCATGCATGCAGAATTTCACG
CTCGAANGTTACCTAATTAGAANGTAATCCATACTCTCGAAACAACCNTATTTNAAGTAGCACTACTATGTAGGAACAGA
ATAACNGACGTCGTTGCCCGGNCNGTGTCAGTTAACAAANCGANCAAAGATGTGCAACGCACAGCCTGCAAGTTACATAA
GCATCCGCTCGTTCAGTTAAGCTGGCAGATCGACCACACACTAGCTTTGATTTGCGCTAACAGTGTATCAGATCTAACTA
GCTCTTGGTGTAATAAGATGAACTGTAGAGCGAAGCGGATACGGACAGTGTAATTATGAGGCTCGAGACATCTTCCTCTC
CCGTCCCTGTCTGAACATCAATGCCGCTCACCAGCGCCACTGTTTCTTGATGCTGATTACGGATTTGTAATTCCATCGAT
CACGCATGCGCGCGCTCTTCTTGTAATTATCTAGAGAGATTAATTGCTCGTCTTGATCGGTGTCT

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.25546.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis