Browse Element(s) Details


Os.50000.1.S1_at

Description gb:AK106761.1
DB_XREF= gi:32991970
TID=Os.50000.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.50000 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-115-D12, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-115-D12, full insert sequence.
FL= gb:AK119580.1 gb:AK106761.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g0282011/11Helix-loop-helix DNA-binding domain containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g02770Os.52476.1.S1_at11/112+1047595..1050120pentatricopeptide, putative, expressed
LOC_Os02g02770Os.52476.1.S2_at10/112+1047595..1050120pentatricopeptide, putative, expressed
LOC_Os02g02780Os.26226.1.S1_at10/112+1050786..1056830protein kinase family protein, putative, expressed
LOC_Os02g02790Os.56801.1.S1_at11/112+1061877..1066211C2 domain containing protein, expressed
LOC_Os02g02800Os.52287.1.S1_at10/112+1067045..1069130LOC124512 protein, putative, expressed
LOC_Os02g02810OsAffx.2489.1.S1_s_at11/112+1069636..1072087expressed protein
LOC_Os02g02810OsAffx.2489.1.S1_at10/112+1069636..1072087expressed protein
LOC_Os02g02810Os.52287.2.S1_at1/112+1069636..1072087expressed protein
LOC_Os02g02820Os.50000.1.S1_at11/112+1073553..1076776Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os02g02830Os.22788.1.S1_at11/112+1078475..1079652Ubiquitin-conjugating enzyme E2-17 kDa 9, putative, expressed
LOC_Os02g02840Os.2448.1.S1_at11/112+1080513..1084282RAC-like GTP binding protein RHO1, putative, expressed
LOC_Os02g02850OsAffx.24073.1.S1_at9/112+1086750..1089571C-1-tetrahydrofolate synthase, cytoplasmic, putative, expressed
LOC_Os02g02860Os.7227.1.S1_at11/112+1090375..1095969Glutamyl-tRNA synthetase, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009409biological_processresponse to cold
GO:0045449biological_processregulation of transcription
GO:0045941biological_processpositive regulation of transcription
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0016563molecular_functiontranscriptional activator activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.50000.1.S1_at--922--4131Chr02:1074162..1074186 (25 bp)
CGCTCGGCCTCGAGGTCATCAACGT
LOC_Os02g02820
Os.50000.1.S1_at--520--1891Chr02:1073983..1074129 (25 bp)
ACGTCTTCCGCGTCATGGTGAGGGA
LOC_Os02g02820
Os.50000.1.S1_at--101--6011Chr02:1073833..1073857 (25 bp)
GAGAGCACTACCACGACGAAGTCGG
LOC_Os02g02820
Os.50000.1.S1_at--674--2852Chr09:4643735..4643787 (24 bp)
AAGTCGGCGGCGGATACCATCAGCA
NONE
Os.50000.1.S1_at--398--6491Chr02:1073803..1073827 (25 bp)
GATACCATCAGCACCTGCATTACCT
LOC_Os02g02820
Os.50000.1.S1_at--301--4951Chr02:1073787..1073811 (25 bp)
GCATTACCTCGCGTTTGATTGATGA
LOC_Os02g02820
Os.50000.1.S1_at--177--8831Chr02:1073755..1073779 (25 bp)
TGATTTTACCATCTACGTCTCACTA
LOC_Os02g02820
Os.50000.1.S1_at--963--7411Chr02:1073727..1073751 (25 bp)
GTGTATACACACTCGAATTATTCGA
LOC_Os02g02820
Os.50000.1.S1_at--604--7531Chr02:1073599..1073623 (25 bp)
GTGGCTAGCTAGAATTGTGGATACT
LOC_Os02g02820
Os.50000.1.S1_at--1034--6471Chr02:1073580..1073604 (25 bp)
GATACTTCTATCGAGTGTTTTTCCA
LOC_Os02g02820
Os.50000.1.S1_at--82--9391Chr02:1073570..1073594 (25 bp)
TCGAGTGTTTTTCCACTTTTGTTGG
LOC_Os02g02820
Target Sequence 
CGCTCGGCCTCGAGGTCATCAACGTCAACGTCACCACCTACAAGACCCTCGTCCTCAACGTCTTCCGCGTCATGGTGAGG
GACAGCGAGGTGGCGGTGCAGGCGGACAGGGTGAGGGACTCGCTGCTGGAGGTGACGCGGGAGACGTACCCCGGCGTGTG
GCCGTCGCCGCAGGAGGAGGACGACGCCAAGTTCGACGGCGGCGACGGCGGGCAGGCTGCGGCGGCGGCGGCGGCGGCCG
GTGGAGAGCACTACCACGACGAAGTCGGCGGCGGATACCATCAGCACCTGCATTACCTCGCGTTTGATTGATGATGATGA
TTGATTTTACCATCTACGTCTCACTACTAGTGTATACACACTCGAATTATTCGAGAAAGAAACATAATGCTACGTACTAG
TAATAATGGATTTGATAAGTAGTTGTCTAGTATTTGTGATTAATGGCATATATGCATAATGACTTGATGACTGAAANGTG
GCTAGCTAGAATTGTGGATACTTCTATCGAGTGTTTTTCCACTTTTGTTGG

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.50000.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis