Browse Element(s) Details


Os.54720.1.S1_at

Description gb:AK106589.1
DB_XREF= gi:32991798
TID=Os.54720.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54720 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-111-G02, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-111-G02, full insert sequence.
FL= gb:AK106589.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g0785011/11polI-like DNA polymerase, putative, expressed
LOC_Os01g022001/11armadillo/beta-catenin repeat family protein, putative, expressed
LOC_Os03g197601/11HAD-superfamily hydrolase, subfamily IA, variant 3 containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g07830Os.27849.1.S1_at11/118+4379424..4382687expressed protein
LOC_Os08g07840Os.15037.1.S1_a_at11/118+4384706..4394413polI-like DNA polymerase, putative, expressed
LOC_Os08g07840Os.15037.1.S2_at11/118+4384706..4394413polI-like DNA polymerase, putative, expressed
LOC_Os08g07840Os.15037.2.S1_x_at10/118+4384706..4394413polI-like DNA polymerase, putative, expressed
LOC_Os08g07840Os.15037.2.S1_at9/118+4384706..4394413polI-like DNA polymerase, putative, expressed
LOC_Os08g07840Os.12123.1.S1_x_at2/118+4384706..4394413polI-like DNA polymerase, putative, expressed
LOC_Os08g07850Os.54720.1.S1_at11/118+4400776..4410901polI-like DNA polymerase, putative, expressed
LOC_Os08g07850Os.15037.1.S1_a_at11/118+4400776..4410901polI-like DNA polymerase, putative, expressed
LOC_Os08g07850Os.12123.1.S1_x_at7/118+4400776..4410901polI-like DNA polymerase, putative, expressed
LOC_Os08g07850Os.15037.2.S1_x_at6/118+4400776..4410901polI-like DNA polymerase, putative, expressed
LOC_Os08g07850OsAffx.661.1.S1_x_at1/118+4400776..4410901polI-like DNA polymerase, putative, expressed
LOC_Os08g07860OsAffx.32034.1.S1_at11/118+4415086..4416634hypothetical protein
LOC_Os08g07870NANA8+4418641..4423644retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g07880Os.52545.1.S1_at8/118+4424574..4427859DNA/pantothenate metabolism flavoprotein, expressed
LOC_Os08g07890Os.12668.1.S1_s_at11/118+4433837..4441289NB-ARC domain containing protein, expressed
LOC_Os08g07890Os.51084.1.S1_x_at2/118+4433837..4441289NB-ARC domain containing protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006260biological_processDNA replication
GO:0009231biological_processriboflavin biosynthesis
GO:0005739cellular_componentmitochondrion
GO:0009507cellular_componentchloroplast
GO:0003677molecular_functionDNA binding
GO:0003887molecular_functionDNA-directed DNA polymerase activity
GO:0003919molecular_functionFMN adenylyltransferase activity
GO:0008531molecular_functionriboflavin kinase activity
GO:0016787molecular_functionhydrolase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54720.1.S1_at--223--5491Chr08:4407250..4407274 (25 bp)
GAACATGCCCTTAGATTTGGATGAC
LOC_Os08g07850
Os.54720.1.S1_at--1073--7971Chr08:4407232..4407256 (25 bp)
GGATGACTAACCTGTGCTTTTGCTG
LOC_Os08g07850
Os.54720.1.S1_at--246--7371Chr08:4407201..4407225 (25 bp)
GTGACAAGCACAGTGGCGCCAGTGA
LOC_Os08g07850
Os.54720.1.S1_at--162--2911Chr08:4407148..4407172 (25 bp)
AAGGTTCCAGTCTAGGGCTGCAGTG
LOC_Os08g07850
Os.54720.1.S1_at--365--3712Chr08:4407123..4407147 (25 bp)
CTAGGTCACTAGGTTTGTTTTGCTT
LOC_Os08g07850
Os.54720.1.S1_at--136--7173Chr11:3312876..3312897 (22 bp)
GTCGGAGTTTATCTCTAACACCGTC
NONE
Os.54720.1.S1_at--142--2512Chr08:4407028..4407052 (25 bp)
CACCTTTTTTCCTCTATCGTAATGA
LOC_Os08g07850
Os.54720.1.S1_at--1114--9758Chr11:28293212..28293237 (25 bp)
TAATGAAATGTACGCAGATCTCCTG
NONE
Os.54720.1.S1_at--964--9492Chr08:4406991..4407015 (25 bp)
TCTCCTGCGCGTTCTAAAAATATTC
LOC_Os08g07850
Os.54720.1.S1_at--452--5492Chr08:4406944..4406968 (25 bp)
GAACACTGTTTTATCTTTTTCTCAA
LOC_Os08g07850
Os.54720.1.S1_at--903--2432Chr08:4406921..4406945 (25 bp)
AAAAGTGCACCCATTTGGCTATGAA
LOC_Os08g07850
Target Sequence 
GAACATGCCCTTAGATTTGGATGACTAACCTGTGCTTTTGCTGTCGCCGGTGACAAGCACAGTGGCGCCAGTGAGCTAGA
GCAGAGCTAGAACAAAATGGAGAAGGTTCCAGTCTAGGGCTGCAGTGCTAGGTCACTAGGTTTGTTTTGCTTCTTGTGGA
CGTGTGGTGTTGGTGTTGTACTTCCGGGTGGGTGGGTGTCGGAGTTTATCTCTAACACCGTCCACCTTTTTTCCTCTATC
GTAATGAAATGTACGCAGATCTCCTGCGCGTTCTAAAAATATTCTTAACAGAACTGATGCAGAAAAGAACACTGTTTTAT
CTTTTTCTCAAAAGTGCACCCATTTGGCTATGAA

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.54720.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis