Browse Element(s) Details


OsAffx.25710.1.S1_at

Description tigr:9631.m05313
TID=OsAffx.25710.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=putative DNA topoisomerase (with alternative splicing)
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5408411/11Phytochrome C, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g54040Os.20521.1.S1_at11/113+30931465..3093502750S ribosomal protein L6, putative, expressed
LOC_Os03g54050OsAffx.3606.1.S1_s_at11/113+30940306..30942347heavy metal-associated domain containing protein, expressed
LOC_Os03g54050Os.32126.1.S1_x_at11/113+30940306..30942347heavy metal-associated domain containing protein, expressed
LOC_Os03g54050Os.32126.2.S1_at11/113+30940306..30942347heavy metal-associated domain containing protein, expressed
LOC_Os03g54059NANA3+30945684..30947253expressed protein
LOC_Os03g54070NANA3+30949559..30949912hypothetical protein
LOC_Os03g54084OsAffx.25710.1.S1_at11/113+30955132..30964347Phytochrome C, putative, expressed
LOC_Os03g54084Os.24622.1.A1_at11/113+30955132..30964347Phytochrome C, putative, expressed
LOC_Os03g54084Os.3383.1.S1_a_at10/113+30955132..30964347Phytochrome C, putative, expressed
LOC_Os03g54100Os.14641.1.S1_at7/113+30965240..30967857calcium-activated outward-rectifying potassium channel 5,chloroplast precursor, putative, expressed
LOC_Os03g54114OsAffx.25711.1.S1_at10/113+30970384..30973078hypothetical protein
LOC_Os03g54130Os.51579.1.S1_at11/113+30973787..30975621Papain family cysteine protease containing protein, expressed
LOC_Os03g54130Os.11707.1.A1_at11/113+30973787..30975621Papain family cysteine protease containing protein, expressed
LOC_Os03g54150Os.17640.1.S1_at11/113+30977948..30982102expressed protein
LOC_Os03g54160Os.2348.1.S1_a_at11/113+30982122..30991960Floral homeotic protein APETALA1, putative, expressed
LOC_Os03g54160Os.50429.1.S1_at11/113+30982122..30991960Floral homeotic protein APETALA1, putative, expressed
LOC_Os03g54160Os.2348.1.S1_at10/113+30982122..30991960Floral homeotic protein APETALA1, putative, expressed
LOC_Os03g54160Os.2348.2.S1_x_at6/113+30982122..30991960Floral homeotic protein APETALA1, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006259biological_processDNA metabolism
GO:0006265biological_processDNA topological change
GO:0006355biological_processregulation of transcription, DNA-dependent
GO:0009630biological_processgravitropism
GO:0009638biological_processphototropism
GO:0009649biological_processentrainment of circadian clock
GO:0009957biological_processepidermal cell fate specification
GO:0010017biological_processred or far red light signaling pathway
GO:0010201biological_processresponse to high irradiance
GO:0010202biological_processresponse to low fluence red light
GO:0010203biological_processresponse to very low fluence red light
GO:0010218biological_processresponse to far red light
GO:0005634cellular_componentnucleus
GO:0005737cellular_componentcytoplasm
GO:0003677molecular_functionDNA binding
GO:0003918molecular_functionDNA topoisomerase (ATP-hydrolyzing) activity
GO:0004673molecular_functionprotein histidine kinase activity
GO:0004871molecular_functionsignal transducer activity
GO:0005524molecular_functionATP binding
GO:0008020molecular_functionG-protein coupled photoreceptor activity
GO:0009883molecular_functionred or far-red light photoreceptor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.25710.1.S1_at--172--1971Chr03:30961560..30961584 (25 bp)
ACTGTCCTATTGATTGTCCATGCCA
LOC_Os03g54084
OsAffx.25710.1.S1_at--333--10171Chr03:30961613..30961637 (25 bp)
TATCTTCCAAGCACTTGGTCTGCTT
LOC_Os03g54084
OsAffx.25710.1.S1_at--597--6332Chr03:30961665..30961689 (25 bp)
GATGCTTCTCTTTTAGCAAGGGCTT
LOC_Os03g54084
OsAffx.25710.1.S1_at--804--4851Chr03:30961705..30961729 (25 bp)
GCTACCATTACAGTGCTATGCTCAT
LOC_Os03g54084
OsAffx.25710.1.S1_at--695--10191Chr03:30961729..30961753 (25 bp)
TATATTCTTCACCTATTCATTTCCC
LOC_Os03g54084
OsAffx.25710.1.S1_at--1045--751Chr03:30961771..30961795 (25 bp)
ATGTCTTTATTATTCCAGCTTGGTG
LOC_Os03g54084
OsAffx.25710.1.S1_at--668--2591Chr03:30961843..30961954 (25 bp)
AACGAATGTCAATGCTGCCTTCTCT
LOC_Os03g54084
OsAffx.25710.1.S1_at--493--9511Chr03:30961950..30961974 (25 bp)
TCTCTATCCCAGTTAGCATCGAAGC
LOC_Os03g54084
OsAffx.25710.1.S1_at--1100--10111Chr03:30962019..30962043 (25 bp)
TATGTTACTGTTAATCTGCACTGAA
LOC_Os03g54084
OsAffx.25710.1.S1_at--948--3111Chr03:30962058..30962082 (25 bp)
AATTTGCTGACATGGATTGCGTGAG
LOC_Os03g54084
OsAffx.25710.1.S1_at--1040--1691Chr03:30962115..30962139 (25 bp)
AGCCACCATCCTTTGTTTTGAGAGA
LOC_Os03g54084
Target Sequence 
ACTGTCCTATTGATTGTCCATGCCAATACTTAATAAGATAACTTCTAACCCCTTATCTTCCAAGCACTTGGTCTGCTTAA
AACAAAATCTGGATGTAAATAGTGAGATGCTTCTCTTTTAGCAAGGGCTTATAGAGCACTGTGAAGCTACCATTACAGTG
CTATGCTCATATATTCTTCACCTATTCATTTCCCCTGTTAAAAACTCATCAATGTCTTTATTATTCCAGCTTGGTGATGG
GCTGGATTAGATTTTTAGAGGGAGAAAAGGAAGTCTATTGTGTAACGAATGTCAATGCTGCCTTCTCTATCCCAGTTAGC
ATCGAAGCAATAAAAGGTTGTTCAGAAATTTAAAGATCTAAAATTCAGTATTTATGTTACTGTTAATCTGCACTGAAAAT
AATTCCTTTACAATTTGCTGACATGGATTGCGTGAGGGGTTGGACCATAATCTCAATTATTCAGAATTAGCCACCATCCT
TTGTTTTGAGAGA

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 OsAffx.25710.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis