Browse Element(s) Details


Os.48809.1.S1_at

Description gb:AK121416.1
DB_XREF= gi:37991039
TID=Os.48809.1
CNT=3
FEA=FLmRNA
TIER=FL
STK=0
UG=Os.48809 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-017-F06, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023133G05, full insert sequence.
FL= gb:AK058580.1 gb:AK121416.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g5484010/11DNA-directed RNA polymerase, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g54800Os.35335.1.A1_s_at11/114+32363062..32366659Shikimate kinase, chloroplast precursor, putative, expressed
LOC_Os04g54810Os.48101.1.S1_at7/114+32370051..32376828Beta-D-xylosidase, putative, expressed
LOC_Os04g54820Os.27125.1.A1_at11/114+32381297..32384241Programmed cell death protein 2, C-terminal domain containing protein, expressed
LOC_Os04g54830Os.36834.1.S1_at10/114+32386034..32389565expressed protein
LOC_Os04g54840Os.48809.1.S1_at10/114+32390816..32399859DNA-directed RNA polymerase, putative, expressed
LOC_Os04g54850Os.351.1.S1_at10/114+32406740..32410067Pectinesterase family protein, expressed
LOC_Os04g54860Os.53282.1.S1_at11/114+32413212..32414887Glutaredoxin family protein, expressed
LOC_Os04g54870Os.37660.1.S2_at11/114+32414803..32418746RNA recognition motif family protein, expressed
LOC_Os04g54870Os.37660.1.S1_at11/114+32414803..32418746RNA recognition motif family protein, expressed
LOC_Os04g54880Os.45774.1.S1_at11/114+32424435..32428388transposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
GO:0006306biological_processDNA methylation
GO:0006350biological_processtranscription
GO:0030422biological_processRNA interference, production of siRNA
GO:0031047biological_processRNA-mediated gene silencing
GO:0035194biological_processRNA-mediated posttranscriptional gene silencing
GO:0005634cellular_componentnucleus
GO:0005720cellular_componentnuclear heterochromatin
GO:0016591cellular_componentDNA-directed RNA polymerase II, holoenzyme
GO:0030880cellular_componentRNA polymerase complex
GO:0003677molecular_functionDNA binding
GO:0003899molecular_functionDNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.48809.1.S1_at--1148--4691Chr04:32399283..32399307 (25 bp)
GCGGCTCTTCATGCTTAGTGACTTC
LOC_Os04g54840
Os.48809.1.S1_at--63--1131Chr04:32399299..32399323 (25 bp)
AGTGACTTCTCGCAGATGCACGTCT
LOC_Os04g54840
Os.48809.1.S1_at--663--5271Chr04:32399346..32399370 (25 bp)
GAATGTTATCATGAGGCCTGTCCCA
LOC_Os04g54840
Os.48809.1.S1_at--1122--8192Chr04:32399508..32399532 (25 bp)
GGAAGTCTGCTAGAACTCCACATCT
LOC_Os04g54840
Os.48809.1.S1_at--232--3551Chr04:32399528..32399552 (25 bp)
CATCTACTATCGACTCACCATGTAT
LOC_Os04g54840
Os.48809.1.S1_at--501--8772Chr04:32399548..32399572 (25 bp)
TGTATATATATCCTCGTTGTCCCTT
LOC_Os04g54840
Os.48809.1.S1_at--645--1111Chr04:32399594..32399618 (25 bp)
AGTGTTGTAGCCACATGACTTCTCT
LOC_Os04g54840
Os.48809.1.S1_at--589--671Chr04:32399608..32399632 (25 bp)
ATGACTTCTCTTCCGGTTGGACGAT
LOC_Os04g54840
Os.48809.1.S1_at--544--10252Chr04:32399721..32399745 (25 bp)
TTTGATGTCCTGTGACCAACCGATG
LOC_Os04g54840
Os.48809.1.S1_at--436--5511Chr04:32399781..32399805 (25 bp)
GAAAACCCTTTTGCTATAGTTCGAT
LOC_Os04g54840
Os.48809.1.S1_at--501--471Chr04:32399856..32399880 (25 bp)
ATCTCCTGCTTTTGCTGTTCTGTGA
NONE
Target Sequence 
GCGGCTCTTCATGCTTAGTGACTTCTCGCAGATGCACGTCTGCCAGACGTGCGAACGTGTGGCGAATGTTATCATGAGGC
CTGTCCCAGGAGGAAAGAAGATCCGGGGNNCATNCTGTGGNTTCTNCCGCTCTTCTGAAAACATAGTAAGGATCAATNTG
CCNTNCGGCGCAAAGCTGCTCTATNCAAGAGCTATTCAGCATGGGGATCTGCCTTAGATTTGAGACGGAAGTCTGCTAGA
ACTCCACATCTACTATCGACTCACCATGTATATATATCCTCGTTGTCCCTTGGAGATTCTNTTATGGGCATTAGTGTTGT
AGCCACATGACTTCTCTTCCGGTTGGACGATGGCATAGCTAGGAGGGGTGAATCTGAAGTCANGGTGAAACCTTTCTTTT
GCTATTTATTTGGGTGAAGACTCAATTCCCATCACCTGCCTTTGATGTCCTGTGACCAACCGATGGCATAGTTAGGGATG
GGGTGAATCAGAGGTCAACTGAAAACCCTTTTGCTATAGTTCGATGTTTCACNTTGGCACTGTACTATGCANATNTTGGA
TGAAAACTCATTTCCCATCTCCTGCTTTTGCTGTTCTGTGA

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.48809.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis