Browse Element(s) Details


Os.52239.1.S1_at

Description gb:AK065811.1
DB_XREF= gi:32975829
TID=Os.52239.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.52239 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013039F07, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013039F07, full insert sequence.
FL= gb:AK065811.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g1829411/11CRAL/TRIO domain containing protein, expressed
LOC_Os12g125141/11oxidoreductase, zinc-binding dehydrogenase family protein
LOC_Os01g117041/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g18270NANA5+10490405..10492286retrotransposon protein, putative, unclassified
LOC_Os05g18280OsAffx.18753.2.S1_at7/115+10506156..10513596Kelch motif family protein
LOC_Os05g18280Os.46436.1.S1_at2/115+10506156..10513596Kelch motif family protein
LOC_Os05g18294Os.52239.1.S1_at11/115+10516688..10525952CRAL/TRIO domain containing protein, expressed
LOC_Os05g18294Os.26781.2.S1_x_at10/115+10516688..10525952CRAL/TRIO domain containing protein, expressed
LOC_Os05g18294Os.26781.1.S1_at9/115+10516688..10525952CRAL/TRIO domain containing protein, expressed
LOC_Os05g18310OsAffx.21779.1.S1_at10/115+10530121..10531675retrotransposon protein, putative, unclassified
LOC_Os05g18310OsAffx.21779.3.S1_at1/115+10530121..10531675retrotransposon protein, putative, unclassified
LOC_Os05g18320NANA5+10532859..10533261transposon protein, putative, unclassified
LOC_Os05g18330NANA5+10536555..10537823retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g18340OsAffx.22947.1.S1_x_at1/115+10538109..10544018retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0006810biological_processtransport
GO:0006979biological_processresponse to oxidative stress
GO:0005215molecular_functiontransporter activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.52239.1.S1_at--194--771Chr05:10523462..10523486 (25 bp)
ATGTGCATCTTAAATACGGTTTTGT
LOC_Os05g18294
Os.52239.1.S1_at--1119--3691Chr05:10523430..10523454 (25 bp)
CTATGAGACTATTTCAGCTGTAGGA
LOC_Os05g18294
Os.52239.1.S1_at--723--1611Chr05:10523415..10523439 (25 bp)
AGCTGTAGGAATGCACTGTGTGAGA
LOC_Os05g18294
Os.52239.1.S1_at--1059--10391Chr05:10523338..10523362 (25 bp)
TTAGTCCTGGATTTCCAACCAGGAG
LOC_Os05g18294
Os.52239.1.S1_at--344--5951Chr05:10523217..10523241 (25 bp)
GAGAAAGTTCTTTACACCAACCAGG
LOC_Os05g18294
Os.52239.1.S1_at--210--6493Chr04:32848716..32848740 (25 bp)
GATAGCGGCAGTCTAGATGGTCCCT
NONE
Os.52239.1.S1_at--704--3454Chr08:857214..857238 (25 bp)
CAGTCTAGATGGTCCCTTTTCTTTT
NONE
Os.52239.1.S1_at--473--5251Chr05:10523123..10523147 (25 bp)
GAATCGGGTGGCATTCACATCCCAA
LOC_Os05g18294
Os.52239.1.S1_at--896--7531Chr05:10523116..10523140 (25 bp)
GTGGCATTCACATCCCAAATCAAAC
LOC_Os05g18294
Os.52239.1.S1_at--273--97155Chr12:6890146..6890171 (25 bp)
TCAAAGTAACATCCCAATCCACATC
LOC_Os12g12514
Os.52239.1.S1_at--26--1411Chr05:10522971..10522995 (25 bp)
AGACTATACATCTCAGACCCATACA
LOC_Os05g18294
Target Sequence 
ATGTGCATCTTAAATACGGTTTTGTGGAATTTCTATGAGACTATTTCAGCTGTAGGAATGCACTGTGTGAGAGGCACAGG
TCACTGGTGGAGAAACCTTTTTTACTCCCAGTTGGTAACCCCCTTTAGTCCTGGATTTCCAACCAGGAGTAGGAATCCGG
GACTAAAGATGCCCATCTTTAGTCCCGGTTGAAATAACCGGGACTAAATCTTTAGTCCCGGTTGGTAGCAAAAACCGGGA
TTAAAGAGAAAGTTCTTTACACCAACCAGGACTAAAGAGGGATAGCGGCAGTCTAGATGGTCCCTTTTCTTTTTTCTTGT
TTCTTTTTTATTTTCTCCCGAATCGGGTGGCATTCACATCCCAAATCAAACCCCAAATCCCCAAATCAAAGTAACATCCC
AATCCACATCACAAATCTTAAAGTTACTAACATACACAAATCAAATACATCACAAATCCTAAAAAAATTACACACAAATC
AAATACATCACAGACTATACATCTCAGACCCATACA

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.52239.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis