Browse Element(s) Details


OsAffx.20387.1.S1_x_at

Description gb:NM_196298.1
DB_XREF= gi:37533955
TID=OsAffx.20387.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNBa0068A07.10), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g2527011/11retrotransposon protein, putative, unclassified
LOC_Os07g161203/11retrotransposon protein, putative, unclassified
LOC_Os07g248103/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g134593/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g432603/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g513203/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g240002/11retrotransposon protein, putative, unclassified
LOC_Os02g542102/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g571102/11retrotransposon protein, putative, unclassified
LOC_Os06g402402/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g012702/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g034502/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g220302/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g283302/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g324202/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g320902/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g213202/11retrotransposon protein, putative, unclassified
LOC_Os11g231402/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g123302/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g159002/11transposon protein, putative, unclassified
LOC_Os12g255102/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g224302/11transposon protein, putative, unclassified
LOC_Os06g033102/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g343202/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g271802/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g228502/11retrotransposon protein, putative, unclassified, expressed
LOC_Os01g292702/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g340902/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g309902/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g397902/11retrotransposon protein, putative, unclassified
LOC_Os05g286802/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g127902/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g289702/11transposon protein, putative, unclassified
LOC_Os06g465202/11retrotransposon protein, putative, unclassified
LOC_Os07g148002/11retrotransposon protein, putative, unclassified
LOC_Os07g311702/11retrotransposon protein, putative, unclassified
LOC_Os05g417202/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g430902/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g140802/11retrotransposon protein, putative, unclassified
LOC_Os03g483401/11retrotransposon protein, putative, unclassified
LOC_Os03g486741/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g378601/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g235501/11transposon protein, putative, unclassified
LOC_Os02g178201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g086101/11transposon protein, putative, unclassified
LOC_Os11g199401/11retrotransposon protein, putative, unclassified
LOC_Os05g474501/11retrotransposon protein, putative, unclassified
LOC_Os06g187601/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g584501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g346401/11transposon protein, putative, unclassified
LOC_Os02g305101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g220401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g153701/11retrotransposon protein, putative, unclassified
LOC_Os05g240401/11retrotransposon protein, putative, unclassified
LOC_Os04g147701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g320301/11transposon protein, putative, unclassified
LOC_Os11g182901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g489101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g142101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g131101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g382841/11transposon protein, putative, unclassified
LOC_Os11g319901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g322501/11transposon protein, putative, unclassified
LOC_Os08g083901/11transposon protein, putative, unclassified
LOC_Os12g242001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g218301/11transposon protein, putative, unclassified
LOC_Os12g361401/11transposon protein, putative, unclassified
LOC_Os09g196101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g247301/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g301101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g024301/11transposon protein, putative, unclassified
LOC_Os11g065001/11retrotransposon protein, putative, unclassified
LOC_Os01g165001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g255901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g147201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g491701/11retrotransposon protein, putative, unclassified
LOC_Os01g410901/11transposon protein, putative, unclassified
LOC_Os12g330001/11transposon protein, putative, unclassified
LOC_Os09g019801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g144601/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os06g367301/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g291401/11transposon protein, putative, unclassified
LOC_Os05g183601/11retrotransposon protein, putative, unclassified
LOC_Os02g169501/11transposon protein, putative, unclassified
LOC_Os02g169801/11transposon protein, putative, unclassified
LOC_Os12g063601/11retrotransposon protein, putative, unclassified
LOC_Os10g013201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g259701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g271201/11transposon protein, putative, unclassified
LOC_Os01g397301/11transposon protein, putative, unclassified
LOC_Os04g306201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g400501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g139701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g472701/11transposon protein, putative, unclassified
LOC_Os03g301101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g230201/11retrotransposon protein, putative, unclassified
LOC_Os06g433401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g300901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g243101/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os01g381501/11retrotransposon protein, putative, unclassified
LOC_Os07g184101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g137101/11transposon protein, putative, unclassified
LOC_Os07g300401/11retrotransposon protein, putative, unclassified
LOC_Os01g683501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g460001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g393101/11transposon protein, putative, unclassified
LOC_Os11g241501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g412801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g290701/11retrotransposon protein, putative, unclassified
LOC_Os02g103401/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g25250OsAffx.30526.1.S1_x_at9/1110+12711517..12715593ZIM motif family protein
LOC_Os10g25250OsAffx.30526.1.S1_at9/1110+12711517..12715593ZIM motif family protein
LOC_Os10g25250OsAffx.17718.1.A1_at3/1110+12711517..12715593ZIM motif family protein
LOC_Os10g25250OsAffx.11600.1.S1_at1/1110+12711517..12715593ZIM motif family protein
LOC_Os10g25260OsAffx.25647.1.S1_x_at9/1110+12720484..12722196hypothetical protein
LOC_Os10g25260OsAffx.25647.1.S1_at8/1110+12720484..12722196hypothetical protein
LOC_Os10g25260OsAffx.25647.2.S1_at3/1110+12720484..12722196hypothetical protein
LOC_Os10g25270OsAffx.20387.1.S1_x_at11/1110+12727647..12728284retrotransposon protein, putative, unclassified
LOC_Os10g25280NANA10+12728537..12731704retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g25290Os.12012.1.S1_at11/1110+12738382..12739510ZIM motif family protein, expressed
LOC_Os10g25300Os.46392.1.S1_s_at11/1110+12749285..12752443expressed protein
LOC_Os10g25300Os.40388.1.S1_at9/1110+12749285..12752443expressed protein
LOC_Os10g25300Os.40388.2.S1_x_at8/1110+12749285..12752443expressed protein
LOC_Os10g25300Os.40388.2.S1_s_at3/1110+12749285..12752443expressed protein
LOC_Os10g25300Os.4648.1.S1_at1/1110+12749285..12752443expressed protein
LOC_Os10g25300OsAffx.19167.1.A1_at1/1110+12749285..12752443expressed protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20387.1.S1_x_at--457--42956Chr12:19524998..19525022 (25 bp)
CCTCTTCCTCGAATAGACCAACTGG
LOC_Os12g32420
OsAffx.20387.1.S1_x_at--933--58539Chr12:19525013..19525037 (25 bp)
GACCAACTGGTGGACTCAACAGCCG
LOC_Os12g32420
OsAffx.20387.1.S1_x_at--1022--2471Chr10:12728147..12728171 (25 bp)
AACAGCCGGCTGTGAGCTTTTGAGT
LOC_Os10g25270
OsAffx.20387.1.S1_x_at--1020--8891Chr10:12728135..12728159 (25 bp)
TGAGCTTTTGAGTTTCCTCGACGCT
LOC_Os10g25270
OsAffx.20387.1.S1_x_at--929--3073Chr08:17666298..17666321 (24 bp)
AATCAGCATGGCGAAAGAAGACGAA
LOC_Os08g29070
OsAffx.20387.1.S1_x_at--958--33913Chr11:7373071..7373093 (23 bp)
CAGCATTCATCACGCCATTCGGGCG
LOC_Os11g13459
OsAffx.20387.1.S1_x_at--226--96115Chr11:7373077..7373158 (25 bp)
TCATCACGCCATTCGGGCGCACGGT
LOC_Os11g13459
OsAffx.20387.1.S1_x_at--158--2942Chr12:13791799..13791822 (24 bp)
ATACGTCGACGACATCGTTGTCAAG
LOC_Os12g24200
OsAffx.20387.1.S1_x_at--198--4851Chr10:12727719..12727743 (25 bp)
GAATAGTTTGGGTTCTAGGGTCGAT
LOC_Os10g25270
OsAffx.20387.1.S1_x_at--1080--7871Chr10:12727709..12727733 (25 bp)
GGTTCTAGGGTCGATTTTTATACAT
LOC_Os10g25270
OsAffx.20387.1.S1_x_at--674--11Chr10:12727677..12727701 (25 bp)
CTTAAAGAAACACATCAAGGGAGGC
LOC_Os10g25270
Target Sequence 
CCTCTTCCTCGAATAGACCAACTGGTGGACTCAACAGCCGGCTGTGAGCTTTTGAGTTTCCTCGACGCTTACTCTGGCTA
CCACCAAATCAGCATGGCGAAAGAAGACGAAGAGAAGACAGCATTCATCACGCCATTCGGGCGCACGGTCCAGGGCGCAC
TTAGCGACCAGCTCGGCAACAATGTCGAGGCATACGTCGACGACATCGTTGTCAAGACCAAGACAAACGACTCATTGATT
GACGATCTGCGGGAAACGTTCGACAACCACCGACGATATCGCCTCATGCTCAATCCAGAGAAGTGCACGTTTGGAGTACC
GTCGGGCAAGCTACTCGGTTTCCTCGTCTCTGGCAGAGGAATAGAGGCAAATCCCGAGAAGATCAAGGCAATCGAGAACA
TGAATAGTTTGGGTTCTAGGGTCGATTTTTATACATATTCTTTCTTAAAGAAACACATCAAGGGAGGC

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.20387.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis