Browse Element(s) Details


Os.5668.2.S1_x_at

Description gb:AK107780.1
DB_XREF= gi:32992989
TID=Os.5668.2
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.5668 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-133-C06, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-133-C06, full insert sequence.
FL= gb:AK107780.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g0929011/11tRNA pseudouridine synthase family protein, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g09240OsAffx.19570.1.S1_at11/1112+4835869..4840580NB-ARC domain containing protein
LOC_Os12g09240OsAffx.9949.1.S1_at1/1112+4835869..4840580NB-ARC domain containing protein
LOC_Os12g09250OsAffx.19571.1.S1_at11/1112+4847895..4849466expressed protein
LOC_Os12g09260Os.45957.4.S1_x_at1/1112+4850629..4854804retrotransposon protein, putative, unclassified
LOC_Os12g09270Os.18192.1.S1_at11/1112+4856910..4858742bZIP family transcription factor, putative, expressed
LOC_Os12g09270OsAffx.19572.1.S1_at10/1112+4856910..4858742bZIP family transcription factor, putative, expressed
LOC_Os12g09280Os.7628.1.S1_at10/1112+4859233..4862090RNA polymerase Rpb3/Rpb11 dimerisation domain containing protein, expressed
LOC_Os12g09290Os.5668.2.S1_at11/1112+4862261..4873873tRNA pseudouridine synthase family protein, putative, expressed
LOC_Os12g09290Os.5668.2.S1_x_at11/1112+4862261..4873873tRNA pseudouridine synthase family protein, putative, expressed
LOC_Os12g09290Os.5668.1.S1_at10/1112+4862261..4873873tRNA pseudouridine synthase family protein, putative, expressed
LOC_Os12g09290Os.50231.1.S1_x_at3/1112+4862261..4873873tRNA pseudouridine synthase family protein, putative, expressed
LOC_Os12g09300Os.47745.1.S1_at11/1112+4880023..4883861amino acid permease I, putative, expressed
LOC_Os12g09310OsAffx.7535.1.S1_at11/1112+4889982..4890461hypothetical protein
LOC_Os12g09320OsAffx.7536.1.S1_at11/1112+4892122..4893528amino acid carrier, putative
LOC_Os12g09330OsAffx.10071.1.S1_at5/1112+4894827..4896151transposon protein, putative, Mariner sub-class
LOC_Os12g09340OsAffx.31659.2.S1_at11/1112+4896621..4897088hypothetical protein
LOC_Os12g09340OsAffx.31659.1.S1_s_at11/1112+4896621..4897088hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0016439molecular_functiontRNA-pseudouridine synthase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5668.2.S1_x_at--534--5971Chr12:4862534..4862558 (25 bp)
GAGTACGTCGGCACCCGGTTCTCCG
LOC_Os12g09290
Os.5668.2.S1_x_at--892--9431Chr12:4862592..4862616 (25 bp)
TCGGCGTCCTCGAGGTGAAATGCTT
LOC_Os12g09290
Os.5668.2.S1_x_at--605--4651Chr12:4862595..4862619 (25 bp)
GCGTCCTCGAGGTGAAATGCTTCTA
LOC_Os12g09290
Os.5668.2.S1_x_at--360--2291Chr12:4862609..4862633 (25 bp)
AAATGCTTCTAATCTGAGCTGTGGA
LOC_Os12g09290
Os.5668.2.S1_x_at--116--3851Chr12:4862622..4862646 (25 bp)
CTGAGCTGTGGATTCGAAATGGCGA
LOC_Os12g09290
Os.5668.2.S1_x_at--190--7071Chr12:4862649..4862673 (25 bp)
GTAATCTGCACTGCTACGGATGTCC
LOC_Os12g09290
Os.5668.2.S1_x_at--181--5031Chr12:4862723..4862747 (25 bp)
GCAGATTTACGAAGGATGAAAGTCC
LOC_Os12g09290
Os.5668.2.S1_x_at--881--251Chr12:4862754..4862778 (25 bp)
ATATGAAGCATGTATACTCGTCTTT
LOC_Os12g09290
Os.5668.2.S1_x_at--839--3511Chr12:4862762..4862786 (25 bp)
CATGTATACTCGTCTTTTGCTGGTC
LOC_Os12g09290
Os.5668.2.S1_x_at--258--3791Chr12:4862770..4862794 (25 bp)
CTCGTCTTTTGCTGGTCTAACTGAA
LOC_Os12g09290
Os.5668.2.S1_x_at--197--4731Chr12:4862780..4862804 (25 bp)
GCTGGTCTAACTGAATCGTTACACT
LOC_Os12g09290
Target Sequence 
GAGTACGTCGGCACCCGGTTCTCCGGCTCCCAGCAGCAGCTCAACCAGCGCACCGTCGTCGGCGTCCTCGAGGTGAAATG
CTTCTAATCTGAGCTGTGGATTCGAAATGGCGACNGTAATCTGCACTGCTACGGATGTCCCNNGNNNNNNGNNNNNNNNN
NAANTTTNNNNAANNNGNNNGGGNNTNGGGCAGATTTACGAAGGATGAAAGTCCNTGAGAATATGAAGCATGTATACTCG
TCTTTTGCTGGTCTAACTGAATCGTTACACT

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.5668.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis