Browse Element(s) Details


Os.54271.1.S1_at

Description gb:AK102955.1
DB_XREF= gi:32988164
TID=Os.54271.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54271 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033115G04, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033115G04, full insert sequence.
FL= gb:AK102955.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g0982011/11expressed protein
LOC_Os09g074801/11integral membrane protein, putative, expressed
LOC_Os10g174541/11RNA recognition motif family protein, expressed
LOC_Os03g049701/11Chaperonin CPN60-1, mitochondrial precursor, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g09770NANA9+5289339..5295740retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g09780NANA9+5298688..5301967retrotransposon protein, putative, unclassified
LOC_Os09g09790Os.26844.1.S1_at11/119+5306474..5308044Fe-S metabolism associated domain containing protein, expressed
LOC_Os09g09800NANA9+5312449..5315317retrotransposon protein, putative, unclassified
LOC_Os09g09810Os.27215.1.A1_at1/119+5315711..5320269retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g09820Os.54271.1.S1_at11/119+5319875..5322838expressed protein
LOC_Os09g09830Os.13980.1.S1_at11/119+5326518..5327817heavy metal-associated domain containing protein, expressed
LOC_Os09g09839NANA9+5331062..5331351NA
LOC_Os09g09850OsAffx.29784.1.S1_at10/119+5347275..5350915heavy metal-associated domain containing protein
LOC_Os09g09850OsAffx.26987.1.S1_at1/119+5347275..5350915heavy metal-associated domain containing protein

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Gene Ontology Classification
GO idTypeName
GO:0006954biological_processinflammatory response
GO:0007005biological_processmitochondrion organization and biogenesis
GO:0007623biological_processcircadian rhythm
GO:0009408biological_processresponse to heat
GO:0051131biological_processchaperone-mediated protein complex assembly
GO:0005634cellular_componentnucleus
GO:0005739cellular_componentmitochondrion
GO:0016020cellular_componentmembrane
GO:0003723molecular_functionRNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54271.1.S1_at--78--9912Chr09:5322324..5322348 (25 bp)
TACTACTCTAGCCTTGCGCAGGAAC
LOC_Os09g09820
Os.54271.1.S1_at--28--10715Chr09:5322337..5322361 (25 bp)
TTGCGCAGGAACTTTCTTCTTTATC
LOC_Os09g09820
Os.54271.1.S1_at--593--7016Chr09:5322372..5322396 (25 bp)
GTACTAGAGCACTCAGTTGCGCACT
LOC_Os09g09820
Os.54271.1.S1_at--852--5392Chr09:5322487..5322511 (25 bp)
GAAGCATCCGCCGAGATACAAGCAA
LOC_Os09g09820
Os.54271.1.S1_at--320--24314Chr12:146180..146200 (21 bp)
AAAATCTGAACCTTTTGGCCACGCT
NONE
Os.54271.1.S1_at--1031--3352Chr09:5322645..5322669 (25 bp)
CACCCACAGCGGACGTGATAGTTTT
LOC_Os09g09820
Os.54271.1.S1_at--756--10051Chr09:5322663..5322687 (25 bp)
TAGTTTTGTCCTATCACGCCAGTGA
LOC_Os09g09820
Os.54271.1.S1_at--1036--8431Chr09:5322697..5322721 (25 bp)
GGCCAAATGATGTTGTCACGCTAGT
LOC_Os09g09820
Os.54271.1.S1_at--126--1851Chr09:5322714..5322738 (25 bp)
ACGCTAGTGGGTTCGACGTGACAAT
LOC_Os09g09820
Os.54271.1.S1_at--652--10232Chr09:5322738..5322762 (25 bp)
TATTGTTTTGTCATGCCAGTTTGGC
LOC_Os09g09820
Os.54271.1.S1_at--901--9191Chr09:5322751..5322775 (25 bp)
TGCCAGTTTGGCTGTCTGATTAAAA
LOC_Os09g09820
Target Sequence 
TACTACTCTAGCCTTGCGCAGGAACTTTCTTCTTTATCCAGGGTCCTAGTACTAGAGCACTCAGTTGCGCACTAAGCGAT
GAATTAGCACCGATGATAATATTTCTCACTTAAGTAAACTAAGTAAAGAATATAAAGAAGGGTCTAATCTTCCTTTATAA
AAGGAAGCATCCGCCGAGATACAAGCAAGAAGGATTTTTTTTATTTTTTTAACCTTTTTAATTTTTAATTTTTTTAGAAA
ACTCTATCAAAAATTATTTTCAAAATCTGAACCTTTTGGCCACGCTAGCCAGCCTGACTTGGCAAAACAACACTGGCACG
CCACCCACAGCGGACGTGATAGTTTTGTCCTATCACGCCAGTGAGGCCAACATGGCCAAATGATGTTGTCACGCTAGTGG
GTTCGACGTGACAATATTGTTTTGTCATGCCAGTTTGGCTGTCTGATTAAAA

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.54271.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis